is there any way to configure jira to send notifications to some users (e.g comment added notification) only if the issue is in a certain status (e.g while it's in "In progress" status) and no more in other statuses?
By default, I do not think that JIRA comes with that functionality. You might want to consider looking for an add on that does that.
Script runner allows you to code this (https://jamieechlin.atlassian.net/wiki/display/GRV/Post+Functions?src=contextnavchildmode#PostFunctions-SendEmailWhenBlockerReported).
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