According to a follow-up story by Torrent Freak, after the initial VGC report, links to download the executable version have started to disappear from various file-hosting websites.
The action - at least in part - has been taken by the US-based law firm, Wildwood Law Group LLC. The firm has supposedly worked with Nintendo in the past to "suppress the availability" of modding tools and related products.
TorrentFreak was able to get hold of one of the complaints filed with Google (via LumenDatabase). Here's exactly what it said:
The copyrighted work is Nintendo’s Super Mario 64 video game, including the audio-visual work, software, and fictional character depictions covered by U.S. Copyright Reg. No. PA[REDACTED].
The reported file contains an unauthorized derivative work based on Nintendo’s copyrighted work.
Nintendo has also been targeting YouTube channels for uploading footage of the PC port - with many videos receiving copyright claims.
Despite the legal measures taken so far, there are still some cases where Nintendo's law firm has filed complaints and had no luck getting download links removed. If we hear any more developments, we'll be sure to let you know.