Thanks for the update @MMM Consulting.

We learned what our debacle was from.

The owner let us know she set up 10% to be deducted from sales and put in a Square savings account.

So now, we are getting deposit adjustments for this for EVERY transaction instead of just one entry on each deposit. 

Gah.

We have selected a daily summary sales receipt in the app, NOT every transactions, and would like these deposit adjustments to also summarize daily if possible. Not sure yet whether to start with Square or Intuit, but have to get taxes filed first, then will attempt to untangle more.