When you say javascript versus vbscript, that implies that everything is going to run in a web browser, which doesn't sound at all like what you're asking. You want vbscript in standalone .VBS files that will run through windows native parser.
Another *EXCELLENT* utility for doing all kinds of automation is AutoIT
You can use it to simulate keyboard and mouse input while reading text files and things of that nature. My autoit masterpiece program runs based on a collection of text files and runs on average for 30-45 minutes straight and does what would take me 8 hours by hand.
However, .VBS will still hold a huge advantage in that you can use it to instantiate windows based objects such as a MS Outlook object or a Word object, and script against functions built into those applications. However, IMHO, this crosses significantly into the realm of VOODOO, and I like to consider myself more of an artist. With .VBS it seems like I am perpetually searching for some mystical microsoft magic word that just does some weird thing but isn't documented, and it's just more hassle than it's worth. With autoit, you know the capabilities up front, and it is very well documented.
Anyway, there is always a best tool for the job, so if you can be more specific about some of the jobs you have in mind, I can tell you if Autoit can do it to avoid having to research it yourself.