Sometime the "problem" can be in the new database, too, since waypoints can drop out.  I drove myself nuts for several days trying to figure out what was wrong, when all it was is that the Navigraph database had changed.  (The problem was their chart didn't match their navdata.)

If that happens, there are no shortage fo fixes, so try picking one close by.

As FSX will never be updated, I sometimes wonder if there will be more and more discrepancies between the latest Navigraph data and what is in FSX.