[MERGE][REF] various: remove several settings allowing to (un)install modules

Unticking options linked to modules lead to applications being removed
without clear notification for the user doing it. Impact of installing
and uninstalling modules is too heavy to be hidden in simple checkboxes
in some settings. This merge therefore removes some of options linked to
modules installation.

This merge is linked to task ID 1841221. Closes #24649.