How to Fix Your Books Before Your Tax Return Is Filed

Tax season has a way of exposing problems fast.

You send your information to your accountant, and suddenly you start hearing phrases like “these numbers don’t look right” or “we need to clean this up first.” That’s when panic sets in.

The good news is this.
You can still fix your books before your tax return is filed, and doing so can save you money, time, and stress.

Here’s how to approach it the right way.

Step 1: Do Not Rush to File Just to Be Done

One of the biggest mistakes business owners make is filing their tax return as quickly as possible, even when the books are not ready.

Filing with incorrect or incomplete numbers can lead to:

  • Missed deductions

  • Overpaid taxes

  • Amended returns later

  • IRS notices or penalties

It is better to pause and fix the books than to file fast and regret it later.

Step 2: Make Sure All Bank and Credit Card Accounts Are Reconciled

Reconciliation is the foundation of accurate books.

This step confirms that every transaction in your bookkeeping software matches what actually happened at the bank or on your credit cards.

If accounts are not reconciled, your Profit and Loss statement cannot be trusted, and neither can your tax return.

Start with your main business checking account and primary business credit card. Once those are accurate, the rest becomes much easier.

Step 3: Clean Up Uncategorized and Misclassified Transactions

Uncategorized expenses are one of the biggest red flags during tax prep.

Before filing, review:

  • Uncategorized income

  • Uncategorized expenses

  • Owner draws recorded as expenses

  • Personal transactions mixed into the business

Each of these can change your taxable income if left unresolved.

You do not need perfection here. You need reasonable, consistent categorization that reflects how the business actually operates.

Step 4: Review Income Carefully

Income errors are common and expensive.

Check for:

  • Duplicate deposits

  • Missing income

  • Owner contributions recorded as revenue

  • Transfers between accounts counted as sales

Even small mistakes can throw off your tax return and create issues later.

Step 5: Verify Payroll and Contractor Payments

Payroll and contractor expenses affect both taxes and compliance.

Before filing:

  • Confirm payroll totals match payroll reports

  • Make sure owner pay is recorded correctly

  • Verify contractor payments are categorized properly

  • Confirm 1099 amounts match your books

Fixing this now prevents corrections after forms are filed.

Step 6: Review Key Reports Together

Before your return is filed, you should be able to review:

  • A Profit and Loss statement

  • A Balance Sheet

Ask simple questions:

  • Does this profit make sense based on how the year felt

  • Do account balances look reasonable

  • Are loans, credit cards, and owner accounts accurate

If something looks off, it probably is.

Step 7: Decide What Can Be Fixed Now and What Can Be Improved Later

Not every bookkeeping issue needs to be perfect before filing.

The goal is:

  • Accurate income

  • Reasonable expenses

  • Reconciled accounts

  • Clear support for tax numbers

Once the return is filed correctly, you can improve systems and reporting going forward without pressure.

Why This Matters More Than Filing Fast

Clean books lead to:

  • Lower tax bills

  • Fewer accountant questions

  • Faster filing once ready

  • Less risk of audits or notices

  • More confidence in your numbers

Messy books almost always cost more in the long run.

The Bottom Line

If your books are not ready, your tax return is not ready.

Fixing your bookkeeping before filing is one of the smartest financial moves you can make, even if it feels uncomfortable to slow things down.

At Red Leaf Bookkeeping, we help business owners clean up their books, coordinate with their accountant, and file taxes with confidence.

To learn more about how we work and book a call when you’re ready, visit redleafbookkeeping.com.

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Who Actually Needs a 1099 (And Who Doesn’t)

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Why Monthly Bookkeeping Saves You Money in the Long Run