Few clues are offered for a good diagnosis.
Some piping codes that have more than one stress check for a load case (e.g., B31.8). Currently CAESAR II shows only one "code stress" in the stress report - where more than one check is present, CAESAR II lists only the stress calculation that has the highest stress-to-allowable ratio. Perhaps you are using such a piping code and more than one stress calculation is exceeded - your fix corrected one but not the other.
Note: the next version of CAESAR II - CAESAR II 2019 (aka Version 11.0) will list ALL stress evaluations that the code sets for a particular load case.