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Payroll & Pensions for Private Doctors
Payroll & Pensions for private doctors. RTI errors? We fix it: fixed fees, ICAEW-regulated specialists. Free quote.
What does payroll & pensions for private doctors involve?
Our payroll & pensions service for private doctors covers payroll processing, rTI, payslips. It solves the problems we see most often — private doctors: RTI errors, auto-enrolment duties, NHS Pension deductions, minimum-wage compliance — on a fixed monthly fee agreed in writing before any work starts.
Fixed fees, specialist healthcare accountants, and every HMRC and NHS Pensions deadline handled.
- Fixed monthly fee — no surprises
- Specialist in NHS pension and healthcare tax
- Onboarding within 48 hours
- ICAEW & ACCA regulated
- 5,000+ clients served by ACCOTAX
- Specialist healthcare accountants
Reviewed by Waqas Sagar ACA FCCA FMAAT, Founder of ACCOTAX, 18+ years' experience · Last reviewed: 8 October 2026 · Updated for the 2026/27 tax year
Medical.Accountants by ACCOTAX, ICAEW/ACCA-regulated chartered accountants, London, serving clients across the UK. Over 5,000 clients served.
Key takeaways
- Problems solved: Private doctors: RTI errors, auto-enrolment duties, NHS Pension deductions, minimum-wage compliance.
- Included: Payroll processing.
- Included: RTI.
- Included: payslips.
Free guide: The Doctor's Tax & NHS Pension Handbook 2026/27
Get the free guideWhich accountancy support fits your income?
Start with how you are paid. Different income sources can need different accounts, returns and expense checks.
| How you work | What we check | Support to explore |
|---|---|---|
| Employed or umbrella (PAYE) | Tax codes, eligible employment expenses and whether a tax return is needed. | Healthcare tax refund support |
| Genuinely self-employed | Business income and expenses, Self Assessment and MTD eligibility. | Healthcare Self Assessment service |
| Your own limited company | Company accounts, Corporation Tax, director income and off-payroll status where relevant. | Healthcare limited company accounts |
| Partnership | Practice accounts, allocated profit and each partner’s personal tax position. | Healthcare partnership accounts |
Sound familiar?
Problems we fix for salaried and resident doctors
- "I think I'm paying too much tax because of a wrong tax code."
- "I've never claimed my GMC, BMA or royal college fees."
- "My extra shifts and bank work are taxed wrongly."
- "I don't know whether I need to file a tax return."
- "I've received a pension annual allowance letter."
What it's costing you
Leaving it unfixed is rarely free
- Overpaid tax
- Unclaimed expenses and wrong tax codes mean paying more than you owe, year after year.
- HMRC penalties and interest
- Late returns attract automatic penalties, plus interest on tax paid late.
- Lost evenings
- Hours spent on forms, invoices and spreadsheets after a long shift.
General examples — your position depends on your own figures.
How we solve it
What we actually do for you
Refund claims
We claim back overpaid tax for up to four previous years.
Tax code checks
We check every employment and fix wrong codes with HMRC.
Self Assessment
Filed for you when you need one, and explained when you don't.
Pension statement review
We explain your annual allowance position in plain English.
How we help
Payroll processing
Part of our payroll & pensions service for private doctors, delivered on a fixed fee.
RTI
Part of our payroll & pensions service for private doctors, delivered on a fixed fee.
payslips
Part of our payroll & pensions service for private doctors, delivered on a fixed fee.
auto-enrolment
Part of our payroll & pensions service for private doctors, delivered on a fixed fee.
Your questions answered
What does a payroll service include?
Care staff must be paid at least the National Minimum Wage for all working time, including travel between visits. Averaging pay over a pay period is allowed but must be checked. A clear rota-to-payroll process and pension auto-enrolment checks keep costs predictable.
Want us to check this for you? Get a free review →What is RTI?
Real Time Information (RTI) requires employers to report payroll data to HMRC on or before every payday. This process ensures tax and National Insurance calculations remain accurate throughout the year. You must submit a Full Payment Submission for each pay period. Our team manages these digital filings for medical practices to ensure compliance.
Want us to check this for you? Get a free review →What are auto-enrolment pension duties?
Most NHS doctors and many healthcare staff are members of the NHS Pension Scheme. Contributions are deducted through payroll, and locum or private work can count only through the correct forms. High earners should check the annual allowance each year, as pension growth can trigger a tax charge.
Check the official guidance · www.gov.ukHelp with this question: NHS Pension Tax & Annual Allowance for Doctors & Healthcare Professionals
Want us to check this for you? Get a free review →How are NHS Pension deductions handled in payroll?
Care staff must be paid at least the National Minimum Wage for all working time, including travel between visits. Averaging pay over a pay period is allowed but must be checked. A clear rota-to-payroll process and pension auto-enrolment checks keep costs predictable.
Check the official guidance · www.gov.ukHelp with this question: NHS Pension Tax & Annual Allowance for Doctors & Healthcare Professionals
Want us to check this for you? Get a free review →What is the National Minimum Wage rule for my staff?
Employers must pay staff at least the statutory minimum rate based on their age and apprenticeship status. These rates typically increase every April. You must maintain accurate records of hours worked to prove compliance. Failure to pay the correct rate can result in significant penalties and public naming by the government.
Want us to check this for you? Get a free review →How much does outsourced payroll cost?
Our packages for private doctors start at £45.83 + VAT a month, with Core at £62.50 and Growth at £75 + VAT. The right package depends on your income sources, whether you trade through a company and any payroll, VAT or pension work. We confirm the exact fee in writing before any work begins, so there are no surprise invoices.
Want us to check this for you? Get a free review →What year-end forms do employers send?
Employers must submit a final payroll report and provide employees with a P60 by 31 May. You may also need to file P11D forms for taxable benefits by 6 July. These documents summarise total pay and deductions for the tax year. Medical.Accountants handles these filings as part of our payroll service.
Want us to check this for you? Get a free review →Can you take over payroll mid-year?
Care staff must be paid at least the National Minimum Wage for all working time, including travel between visits. Averaging pay over a pay period is allowed but must be checked. A clear rota-to-payroll process and pension auto-enrolment checks keep costs predictable.
Want us to check this for you? Get a free review →Are medical services VAT exempt in the UK?
Most health care by registered professionals is VAT exempt where the main purpose is protecting or restoring health, so many clinicians never register. VAT becomes relevant when you sell goods, provide cosmetic or medicolegal services, or exceed the registration threshold with taxable income. HMRC Notice 701/57 gives the official guidance.
Check the official guidance · www.gov.ukHelp with this question: VAT Registration & Returns for Private Doctors
Want us to check this for you? Get a free review →When must a healthcare business register for VAT?
Welfare services such as residential and domiciliary care are VAT exempt when supplied by a provider regulated by the relevant state regulator, such as CQC in England or Ofsted for children's homes. Unregulated elements, introductory agency fees and some supported living services can be standard-rated. HMRC Notice 701/2 explains the conditions.
Check the official guidance · www.gov.ukHelp with this question: VAT Registration & Returns for Private Doctors
Want us to check this for you? Get a free review →Which healthcare services are standard-rated for VAT?
Welfare services such as residential and domiciliary care are VAT exempt when supplied by a provider regulated by the relevant state regulator, such as CQC in England or Ofsted for children's homes. Unregulated elements, introductory agency fees and some supported living services can be standard-rated. HMRC Notice 701/2 explains the conditions.
Check the official guidance · www.gov.ukHelp with this question: VAT Registration & Returns for Private Doctors
Want us to check this for you? Get a free review →Are my services exempt or standard-rated?
Medical care provided by registered health professionals is generally VAT exempt if the primary purpose is protecting health. Purely cosmetic procedures and medicolegal reports are typically standard-rated at the prevailing rate. You must monitor your taxable turnover against the £90,000 registration threshold. Determining the correct liability requires a detailed review of your specific services.
Check the official guidance · www.gov.ukWant us to check this for you? Get a free review →What is partial exemption?
Partial exemption applies when a healthcare business makes both VAT-exempt and taxable supplies. You cannot usually reclaim all input VAT if you have exempt income. A specific calculation determines how much VAT on overheads is recoverable. This is a common requirement for GPs and consultants with mixed income streams.
Check the official guidance · www.gov.ukHelp with this question: VAT Registration & Returns for Private Doctors
Want us to check this for you? Get a free review →What happens if I registered late?
Failure to register for VAT when your taxable turnover exceeds £90,000 may result in financial penalties. HMRC may also charge interest on the VAT that should have been paid from the effective date of registration. You will be liable for the VAT on past sales regardless of whether you charged it. Early disclosure often helps in mitigating these penalties.
Want us to check this for you? Get a free review →Quick quote
See what you could save — get a fixed fee in one working day
Three fields. No obligation. A specialist replies, not a sales team.
Packages for your working life
Accountancy packages for doctors
Self-employed income, a limited company, PAYE or a mixture: start with the support that matches how you actually work. We check your status and agree the scope and fee before starting.
Self-employed accountants for doctors packages
For genuine sole-trader income. We prepare your business accounts and Self Assessment, review allowable expenses and explain payments on account.
- Sole-trader accounts and personal tax return
- Allowable business expenses reviewed
- Tax reserve and payment deadline guidance
- MTD support scoped separately where required
Fixed fee quoted after a review
Discuss this packageLimited company accountants for doctors packages
For clinicians working through their own company. Choose Essential/Compliance, Core/Complete or Growth according to your accounts, bookkeeping and payroll needs.
- Statutory accounts and Corporation Tax return
- One director return for salary and dividends from the same company
- Confirmation statement support; filing fee extra
- Bookkeeping, VAT and payroll according to your chosen plan
Company packages from £45.83 + VAT / month
Compare company packagesPersonal tax return packages for doctors
For employed clinicians, partners and people with mixed income who need a return. We check whether Self Assessment is required and reconcile the relevant income, expenses and pension tax information.
- Self Assessment requirement checked
- PAYE and other income reconciled
- Eligible employment expenses reviewed
- Pension tax work agreed separately where needed
Fixed fee quoted after a review
Discuss this packageEmployment status is determined by the facts, not the package you choose. PAYE, umbrella and partnership arrangements may also apply. A limited company does not override IR35 or off-payroll rules, and not every employed clinician needs a tax return.
Overpaid tax?
Tax refund support for doctors
We review tax codes, eligible professional expenses and overpaid tax, then prepare a claim where you qualify. A refund is not guaranteed; HMRC decides the claim.
£249 + VAT
For refunds up to £5,000, our fee is £249 plus VAT. For refunds above £5,000, add 5% of only the amount above £5,000 to the £249 fee. VAT applies to the total professional fee.
Example: a £6,000 refund means £249 + £50 = £299 plus VAT.
Professional fee, excluding VAT
£249
This illustrates the fee only, not whether you qualify or how much HMRC will refund. We agree the claim scope and payment terms before work starts.
What's included
Limited company packages — compare what's included
Essential/Compliance
For locums, salaried GPs and dentists with a limited company
from £45.83 + VAT /month
- FRS 105 or FRS 102 1A statutory accounts
- Corporation tax return (CT600) and tax computation
- Confirmation statement preparation and filing support
- One director Self Assessment return
- Deadline reminders ahead of every filing date
Core/Complete
For private practice, consultants and associate dentists
from £62.50 + VAT /month
- Everything in Essential/Compliance
- Monthly bookkeeping and bank reconciliation
- Quarterly Making Tax Digital VAT returns
- Director payroll with RTI filing and pension submissions
- Quarterly review call on numbers and tax position
Growth
For clinics, dental practices and growing medical teams
from £75.00 + VAT /month
- Everything in Core/Complete
- Payroll for up to five employees
Prices exclude VAT. Making Tax Digital quarterly updates available as an add-on. Compare fees
Why clinicians trust us
Chartered accountants who know the NHS
- ACCOTAX has served over 5,000 clients.
- Regulated chartered accountants (ICAEW and ACCA).
- Founded by Waqas Sagar ACA FCCA FMAAT, with 18+ years' experience.
Reviewed by Waqas Sagar ACA FCCA FMAAT
Chartered accountant and founder of ACCOTAX. Last reviewed October 2026.
Get my fixed-fee quoteHow it works
- 01
Free call
A 15-minute chat about your income, structure and deadlines.
- 02
Onboarding in 48 hours
We set up your records, software and HMRC agent access.
- 03
We handle the rest
HMRC, NHS Pensions and every deadline, with reminders before each one.
Free resource
Get the doctor expenses checklist free
Tell us where to send it and we'll email it to you.
Your questions, answered
- Do private doctors need payroll & pensions?
- Most health care by registered professionals is VAT exempt where the main purpose is protecting or restoring health, so many clinicians never register. VAT becomes relevant when you sell goods, provide cosmetic or medicolegal services, or exceed the registration threshold with taxable income. HMRC Notice 701/57 gives the official guidance.
- What does payroll & pensions for private doctors include?
- Most health care by registered professionals is VAT exempt where the main purpose is protecting or restoring health, so many clinicians never register. VAT becomes relevant when you sell goods, provide cosmetic or medicolegal services, or exceed the registration threshold with taxable income. HMRC Notice 701/57 gives the official guidance.
- How much does it cost for private doctors?
- Our packages for private doctors start at £45.83 + VAT a month, with Core at £62.50 and Growth at £75 + VAT. The right package depends on your income sources, whether you trade through a company and any payroll, VAT or pension work. We confirm the exact fee in writing before any work begins, so there are no surprise invoices.
- What are the deadlines for private doctors?
- Most health care by registered professionals is VAT exempt where the main purpose is protecting or restoring health, so many clinicians never register. VAT becomes relevant when you sell goods, provide cosmetic or medicolegal services, or exceed the registration threshold with taxable income. HMRC Notice 701/57 gives the official guidance.
- Can I switch to you mid-year?
- Switching takes minutes on your side. You sign our engagement letter, we contact your previous accountant for professional clearance and records, and we take over HMRC and Companies House authorisations. You can switch mid-year; we pick up from the last filed return.
Speak to a specialist today
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Book a free 15-min tax reviewRelated healthcare expertise
General information for the 2026/27 tax year, prepared from the official guidance linked below. It is not personalised tax or regulated financial advice. Rules and circumstances can change; confirm your position before acting.
Official sources referred to on this page: HMRC VAT Notice 701/57; HMRC Notice 706 partial exemption; HMRC VAT registration (GOV.UK); HMRC MTD for VAT.