Commenting out code in TrueCode mode deletes code

We used RoboHelp X3 and was trying to comment out specific
sections of a code by moving over to the True Code view and
commenting them out following the usual HTML standards/conventions.
However, we found that when we saved the project, generated the
file, and opened the topic(s) from the source project next time,
the sections that we had commented out had actually got deleted.
Could you please help me with this? Is there a specific way to
comment out code in RoboHelp?

(I began the earlier reply before I knew what I wanted to
say).
Is it possible that when those particular lines are commented
out, the result is a syntax error in the remaining html or js code?
Also, consider that html and js code techniques have come a
long way since X3. Maybe your code is technically correct now, but
X3 doesn't know it.
Good luck.
Harvey

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