The official app has a bug causing it to display incorrect point totals. Individual points in the app are correct, but the final total is not. It appears that the total value may be based on pre-january points. To make matters worse, this is an intermittent issue that doesn't always happen.
Solution: use the PDF or another squad builder such as raithos.github.io. I ran the same test suite many times on all the builders and only the official one has this issue.
For those who use squad2xws, Zach has already updated it to fix this issue, but still - don't use the official squad builder if you can help it.