Just the other day I discovered the following issue and it is fixed in the latest beta, I do believe that the issue you are experiencing is directly related.
Fixed: [console/ANSI parser] The ANSI color parser used in the status window contained a flaw that attempted to read past the end of the string resulting in unpredictable crashes.
To download the latest beta of FlashFXP.
From within FlashFXP > Options > Preferences > LiveUpdate > Release Type > Beta and click the OK button, then Help > Check for new version.
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