Removing PUPs: Negative Consequences?

[sangxuan]

My scan completed with 1544 PUPs detected. Its a work computer and my co-workers and supervisor are reluctant to remove or quarantine so many files (they are all marked as PUPs). Are there any potentially harmful consequences to quarantining PUPs (especially so many)? For example, are there files, keys, processes, etc. that Malwarebytes considers PUPs that are essential to the functionality of commonly accepted programs (browsers and such)? Sorry if this is an inappropriate forum for this topic--please direct me to where this post would be best received and I will move it asap, if necessary.