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Fix where activation goes missing after user modifying rc scripts (#880)
Resolves:
#865
If user modifies already existing shell profile script needed for shell
startup, they get stuck into not activating state because they still
have auto activation guard, which blocks shell integration from core
from activating.
This also means because they have wrong env var in profile script, it
won't activate there either.
We should better track this, and properly clean up profile script when
relying on shell integration for activation.
/cc @karthiknadig
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