Bookkeepers are the financial backbone of any MSP. They manage receivables, reconcile deposits, and keep the general ledger accurate. But MSP billing comes with challenges that traditional payment systems don’t solve: batch deposits that don’t match invoices, inconsistent payment methods, and too much manual data entry.
Industry-leading accounting professionals see these challenges frequently. As Matthew Zaroff of Visionary360 explains:
“We see a lot of MSPs that run their finances like a generic small business. It makes it impossible to track profitability or identify underperforming services.
The fix is: clean up the PSA to accounting integration, tailored reporting, and processes built for recurring revenue.”
FlexPoint was built to eliminate those friction points. By centralizing payments and syncing data directly into your PSA and accounting system, FlexPoint gives bookkeepers cleaner records without the manual grunt work.
Here are eight ways FlexPoint helps your bookkeeper keep your MSP’s books in order.
Deposit reconciliation is a constant challenge for bookkeepers. Client payments hit the bank in batched deposits that rarely line up one-to-one with invoices. This leads to time wasted on manually matching deposits to open invoices and journal entries.
With FlexPoint, deposits flow directly into your bank account and sync automatically into your accounting software, like QuickBooks Online. Payments tie back to the right invoices without manual matching, so reconciliation happens in the background.
Let's use deposit reconciliation of a partial payment in QuickBooks Desktop, as another example. Once the deposit is received in your bank account, it will automatically reconcile with the deposit created by FlexPoint.
IT Vortex’s bookkeeper and office manager experienced this firsthand:
“I was so pleasantly surprised by how seamlessly our deposits go into our bank account with FlexPoint. They go right over to our QuickBooks as well. I don’t have to enter any manual payments, and everything auto-reconciles.”
For bookkeepers, that means no more guessing games at reconciliation time. Just clean, accurate records every time.
For accurate financial reporting, bookkeepers need real-time visibility into cash inflows and outflows. Without it, forecasting and liquidity planning become guesswork.
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FlexPoint consolidates all receivables in one dashboard. Whether payments come via ACH, credit card, or flexible financing (all via the client portal), bookkeepers know the exact status of each transaction. This level of visibility supports accurate accounts receivable (A/R) aging reports and stronger cash flow forecasting.
Robust AutoPay rules add another layer of predictability into your cash flow. Your bookkeeper can quickly view when these recurring payments will be initiated, as well as quickly control global and customer-specific AutoPay rules. See it in action, below:
Circuit Saviors, a California-based MSP, experienced a 30% increase in cash flow after switching to FlexPoint. Garrett Snelling, the primary owner, puts it best by saying:
“Setting up our clients with FlexPoint is really easy. I don’t have to worry about contracts because the AutoPay just works. Using this platform is so much better and so much more efficient.”
Closing the books at month-end can drag on when reconciliation takes too long or journal entries pile up.
FlexPoint speeds up the close process by automatically syncing payments and fee allocations into the accounting system, along with reconciling deposits. Bookkeepers spend less time cleaning up unmatched transactions and more time finalizing reports.
With FlexPoint GL Connect, reconciliation becomes even more straightforward and automated. When an invoice is closed in ConnectWise PSA, that status automatically updates in QuickBooks Online through FlexPoint. Bookkeepers can see exactly which client payments tie to which deposits in the bank feed.
See GL Connect in action below.
That means cleaner reconciliations, fewer suspense accounts, and reduced month-end adjustments. Plus, you avoid paying for a sync-only tool like Wise-Sync or Mobius Lite.
When bookkeeping gets buried in duplicate entries or mismatched payments, it leaves little room for the work that actually moves the needle. For MSPs, that means less time spent digging into billing KPIs like recurring revenue ratios, client churn rates, DSO, and more.
FlexPoint clears that roadblock. By automating transaction posting, deposit matching, and fee allocation, the day-to-day work gets lighter. Bookkeepers get back hours each month that can go toward preparing cleaner reports, tightening up expense classifications, and helping MSPs understand where they’re really making money.
It gives bookkeepers the chance to be a real value-add, not just the last step in the process.
Gaby Patterson, the accountant at TAZ Networks, identified the immediate impact of FlexPoint on her day-to-day work:
“FlexPoint automates past-due invoice emails, something I used to spend at least two days per month on. I just love everything this platform does for me.”
As a result, the MSP reduced AR aging by 4x and experience a 30% decrease in time spent invoicing.
Audit readiness depends on traceable, transparent records. When payment data is scattered or manually keyed, audit trails get messy.
FlexPoint automatically logs every payment, fee, and net deposit amount. Each transaction is tied directly to the related invoice and deposit, creating a clear trail from client payment to general ledger entry.
Above, you can see a detailed view of the broader deposits log, as well as details for each deposit, below.
This transparency saves bookkeepers time during audits and reduces compliance risk for the MSP.
Inconsistent payment methods often mean inconsistent bookkeeping. One client pays by card, another by ACH, and another insists on mailing checks. This forces bookkeepers to juggle multiple workflows and keep track of payments manually.
FlexPoint standardizes payment processing by applying rules consistently across clients and transaction types. These rules can be customized to apply to all clients or on a client-by-client basis.
It’s a win-win for both your clients and your bookkeeper. Your clients unlock more, flexible options to pay. Your bookkeeper sees uniform data in the accounting system, reducing errors in accounts receivable, unearned revenue tracking, and deferred revenue schedules.
John Douglass, President of Pileus Technologies, identified the value of flexible payment options via a white label client portal.
“FlexPoint’s financing services set us apart from the competition. It shows prospective clients that we’re here to be a true partner, ready to serve them at any stage of their journey.”
As a result, the MSP experienced 80% faster payment processing times and a 5% increase in new customers from offering FlexPoint one-click financing.
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Checks slow everything down. They require manual deposits, create delays in posting to accounts receivable, and increase the risk of errors or lost payments.
FlexPoint makes it easier for MSPs to move clients off checks by offering modern digital payment options through the client portal. Bookkeepers benefit from faster collections, fewer manual deposits, and cleaner reconciliation.
And with features like global and client-level surcharging rules, MSPs can further discourage check use without awkward client conversations. Alternatively, FlexPoint offers Same-Day ACH, so you access funds quicker and your clients avoid potential credit card fees.
Misapplied surcharges create discrepancies that frustrate bookkeepers and slow reconciliation.
FlexPoint enforces consistent surcharging and convenience fee rules. Fees are applied automatically, and the amounts flow cleanly into the general ledger. That reduces manual adjustments and ensures accurate reporting of gross revenue vs. net deposits.
After a transaction occurs, a payment receipt (as seen below) will be available for both you and your clients which contains a detailed breakdown of the payment, including credit card fees.
Curious about the surcharging laws in your state? Check out our State Surcharging Map for state-level rules and regulations.
Bookkeepers play a critical role in MSP operations. FlexPoint makes their job easier by delivering:
FlexPoint empowers bookkeepers by automating routine tasks, providing real-time insights, and ensuring consistency across financial processes. With features like automated deposit reconciliation, standardized payment processing, and accurate surcharge application, FlexPoint helps bookkeepers work more efficiently and effectively.
Skip the sales call and watch the on-demand demo of FlexPoint now.
