When running the Program revenue report for each sales method on it's own, you may find that manually adding up the net totals does not match the net total when running the report and including all sales methods.
This issue was resolved in an update to 4.8
Steps to Duplicate
From Sales, select the Program revenue report
Run the report for each sales method on it's own
Add up the net totals for each sales method
Then run the report with All sources marked and see that the totals do not match