Your manager placed you under the Performance Improvement Plan (PIP) twice. However, did he assign credible reasons for doing so? If yes, then what is your take on that?
You also say that you have got email appreciation twice and that too in different projects. If the manager was frosty to you then how come he also appreciated to you? If not him then who appreciated you?
Your manager threatened you to ruin your career. But then do you have evidence of doing so? If not then try generating evidence by way of recording the audio conversation. Do it surreptitiously.
You have not received your variable pay twice. This is because your rating in the Performance Appraisal (PA) was "Needs Improvement". But at the same time, you were appreciated for your work. Therefore, you may bring this contradiction to the notice of your management by submitting an application. In the application, just submit the facts without logic. At the end of the application, request to review the rating by the Manager.
Once you submit the application, let us see what your management takes a decision. Further advice will depend on that.
17th December 2018 From India, Bangalore
The issue could be either of interpersonal relationship/workplace politics/performance gap/communication gap/perception gap/Element of sexual harassment (quid pro pro quo).
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17th December 2018 From India, Mumbai