QB Issue Resolution:

Use Banking->Make Deposits to record deposits. I don’t completely understand the rest of your question but you should be able to double click on a line in your register and bring up the underlying Check entry screen. From there you can choose Edit->Delete Check.

Resolution for Issue 'how do i delete an item erroneously posted as a debit in my check register?' available: Yes (Solved).
Source: Intuit Community forum.

how do i delete an item erroneously posted as a debit in my check register?: this issue or error code is a known issue in Quickbooks Online (QBO) and/or Quickbooks. Support for this issue is available either by self-service or paid support options. Experts are available to resolve your Quickbooks issue to ensure minimal downtime and continue running your business. First try to resolve the issue yourself by looking for a resolution described below. If it is a complex issue or you are unable to solve the issue, you may contact us by clicking here or by using other support options.

Support for Check Register
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Error Recovery for Check Register [Canada]
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