Take the transcript that you got from the university in 2012, not an issue. MU has a problem with documents that are a decade or more older. So, you are good to go.
Here's the process in general:
1. Take your ORIGINAL marksheets, passing certificate(s), degree certificate(s), transcript(s) to the University - NOT Kalina, go to Churchgate (Right next to Sydenham)
2. Considering this is for immigration, take two sets of black and white xeroxes (arrange them in the order you like). One set is for their record, other is for you to mail to WES (they charge 5 rupees per page for your copy, 0.50 paise for theirs). Additionally, take a small envelope and a larger envelope along with the address and your WES reference number on them. In case you haven't paid WES your fee, just write it all and keep the number area blank, you can add it later. If you have paid WES already, you know what to do.
3. They will attest the documents (director's signature and a couple of stamps) and stamp the envelopes, and return it to you within 24-48 hours. Preferred days of visit are Thursday and Friday as the crowds are lesser on these days; university office opens at 11. You can reach by 10.30 and get your token number; shouldn't take you more than 90-120 mins to get your work done.
Note that they won't seal the envelopes, but everything else will be in place. Just seal with glue and mail it to WES. No need to separate college degrees from university degrees. Just seal them all in one envelope, put it in a second one (larger of course), and you are good to go.