I downloaded the Prototype and Scriptaculous bundle from http://encytemedia.com/blog/articles/2006/01/03/textmate-vibrant- ink-theme-and-prototype-bundle but it seems not to be working (yes, I have activated it)
I don't get any syntax highlightning from it in either html or js files, and this is supposed to happen as far as I understand?
For javascript files when you say activate I presume you mean to make the bundle active in the Bundle Editor. You also need to select the Prototype and Scriptaculous bundle in the bottom of the editor window, it'll remember the selection for .js files after that.
As for HTML files... that won't work. There's currently no way to extend a bundle, you can only replace it. HTML includes the javascript bundle, there no way for the Prototype bundle to be called into the process.