I don't use Google Chrome anymore. That's what I think of their decision. If they want my business (and my data) they shouldn't make it difficult for me to use common programs.
NPAPI, Netscape Plugin Application Programming Interface, is a cross-platform plugin architecture used by many web browsers. It allows programs like Silverlight, Unity, Java, or Facebook Video to run in browers. Removing NPAPI support from Chrome means that Chrome users will no longer be able to use any of these programs.
Google stands that "NPAPI is a really big hammer that should only be used when no other approach will work". [source]
Java responds with "The Java plug-in for web browsers relies on the cross platform plugin architecture NPAPI, which has long been, and currently is, supported by all major web browsers. We strongly recommend Java users consider alternatives to Chrome as soon as possible. Instead, we recommend Firefox, Internet Explorer and Safari as longer-term options." [source]