20 Aug How to Reclaim CIS Deductions: A Guide for Subcontractors
If you work in the UK construction industry, you’re likely very familiar with the Construction Industry Scheme (CIS). You’ll also be familiar with that frustrating 20% (or 30% if you aren't registered) being sliced off your invoices before the money even hits your bank account.
While it feels like a heavy tax burden in the moment, it’s important to remember that this money isn't necessarily "gone." It is simply tax held on account by HMRC. For many subcontractors, the amount deducted throughout the year actually exceeds what they truly owe once expenses and personal allowances are factored in.
So, how do you get that money back? Whether you are a sole trader or running a limited company, reclaiming your CIS deductions is a vital part of your business's cash flow. In this guide, we’ll break down exactly how to navigate the process, avoid the common traps that delay refunds, and show you why having an expert CIS accountant on your side can make all the difference.
Are you a Sole Trader or a Limited Company?
The path to your tax refund depends entirely on how your business is structured.
One of the biggest mistakes we see at Harrison's Accountancy is clients trying to use the wrong method for their business type. HMRC has two very different systems for CIS reclaims: one for individuals (sole traders and partners) and one for limited companies.

If you get these mixed up: for example, trying to claim a limited company refund through a personal tax return: you’re looking at months of delays and potential queries from HMRC.
- Sole Traders: You reclaim via your annual Self Assessment tax return.
- Limited Companies: You reclaim by offsetting deductions against your monthly PAYE liabilities, then requesting a final refund after the tax year ends.
The Sole Trader Guide: Reclaiming via Self Assessment
For the self-employed, the tax year (6th April to 5th April) is your primary window for a CIS tax refund.
As a sole trader, you don’t get your money back "as you go." Instead, you have to wait until the end of the tax year to tell HMRC how much you’ve earned, what your expenses were, and how much tax has already been deducted from your pay.
Step 1: Get your paperwork in order
You cannot reclaim what you cannot prove. Every time a contractor pays you, they must provide a "Payment and Deduction Statement." You need every single one of these for the tax year.
Step 2: Calculate your "Gross" income
A common pitfall is only reporting the money that landed in your bank account. HMRC needs to know your gross income (the total before any CIS was taken off). If you report the net amount, you’re essentially paying tax twice.
Step 3: Don't forget your expenses
This is where you actually "earn" your refund. Because 20% was taken off your total labour, but you had to pay for fuel, tools, and materials out of your own pocket, you likely overpaid. Claiming every legitimate expense: from mileage to PPE: lowers your taxable profit, which increases your CIS tax refund.
Step 4: The magic box on the tax return
On your SA103 (Self-Employment) pages, there is a specific box for "CIS deductions suffered." This is where you enter the total tax withheld by your contractors. HMRC will then calculate your actual tax bill and, in most cases, issue a refund for the difference.
The Limited Company Guide: Offset and Recover
If you operate as a limited company, the process is more dynamic but requires tighter monthly reporting.
Unlike sole traders, limited companies don’t wait until the end of the year to start the recovery process. You use the money deducted from you to pay for the tax you owe for your own employees.

1. Monthly Offsetting (The EPS)
Each month, when you run your payroll, you’ll have a PAYE and National Insurance bill to pay to HMRC. If you’ve had CIS deducted from your company's income, you can subtract that "CIS suffered" from your PAYE bill. You do this by submitting an Employer Payment Summary (EPS) through your payroll software.
2. The Year-End Refund
If, at the end of the tax year, you’ve had more CIS deducted than you owed in PAYE/NI, your company is in "credit." You can then submit a formal request to HMRC’s CIS office to have that money paid back into the company bank account.
Pro Tip: Never try to claim CIS deductions on your Corporation Tax return (CT600). This is a strictly PAYE-system process for limited companies.
When will the money arrive?
Understanding the timeline helps you manage your business's cash flow effectively.
HMRC doesn't always move at lightning speed, but knowing what to expect can stop you from chasing them too early (or too late).

- For Sole Traders: If you file your return online as soon as the tax year ends (April/May), you can often see a refund in your bank account within 2 to 4 weeks. If you wait until the January deadline, the sheer volume of returns means you might be waiting much longer.
- For Limited Companies: The process is slightly slower. HMRC usually needs to reconcile all your monthly EPS submissions first. You can typically expect a refund about 40 working days after the tax year ends, provided all your filings are up to date.
Common Pitfalls: Why your refund might be stuck
Avoid these three classic mistakes to ensure your money arrives without a fight.
- Mismatched Records: If your reported CIS deductions don't match what the contractor reported to HMRC, your refund will be flagged. This usually happens because of simple typos or missing statements.
- Not Registered Correctly: If you aren't properly registered for CIS, you’ll be hit with a 30% deduction instead of 20%. While you can still reclaim this, it’s a huge hit to your daily cash flow.
- Missing "Allowable" Expenses: Many subcontractors are so focused on the CIS refund that they forget to claim for things like "use of home as office" or specific training courses. At Harrison's Accountancy, we often find extra money for our clients just by reviewing their expense lists properly.
How Harrison’s Accountancy Makes it Painless
Why struggle with HMRC's portals when you could have a Platinum Champion on your side?
We know that most subcontractors just want to get on with the job. You don't want to spend your Sunday evenings wrestling with spreadsheets or trying to figure out why your EPS hasn't reconciled.

As Xero Cloud Experts with Platinum Champion status, we make the whole process seamless. Here is how we help:
- Digital Bookkeeping: We help you move away from that "shoebox of receipts" to a clean, digital system. Using Xero allows you to snap photos of receipts on the go, meaning nothing gets lost and every penny is claimed.
- Direct Communication with HMRC: We act as your "CFO." If there’s a discrepancy in your CIS records, we deal with HMRC so you don't have to sit on hold for 40 minutes.
- Personalised Service: We aren't a "refund factory." We are a team of Chartered Accountants who offer personalized accountancy services tailored to the construction and media industries. We ensure you aren't just getting a refund, but that your entire tax position is optimized.
If you’re worried about your accounts or just want to ensure you’re getting every penny back that you’re owed, why not book a call with us today? We can take a look at your situation and give you the peace of mind you need to focus on growing your business.
Take Control of Your CIS Today
Reclaiming your CIS deductions shouldn't be a gamble. By staying organized, choosing the right business structure, and using the right tools, you can ensure that the taxman doesn't keep a penny more than he’s entitled to.
Ready to get started? Contact Harrison's Accountancy and let’s get your tax back where it belongs( in your pocket.)
No Comments