In my project I have uploaded only the exe file and have provided a link to the Github page for the source code.  However, I now realize that I intend to keep working on it after them jam has finished. Can I upload the source code for the version that was submitted so I can keep working on the Github version? Or should I just create a branch with the version that was developed during the jam? My concern is that people go to the Github page and find a more advanced project than the one developed during the jam. 

Another option would be to tag the last jam commit then link to that tagged version on your project page.

I have just done this on my own repo, if you wanted to see how it looks:

• https://github.com/backwardspy/firepower/tree/jam
• https://github.com/backwardspy/firepower/releases/tag/jam

You can do this with git tag -a jam -m "some comment about the tag goes here"

A tag as suggested by backwardspy, and/or a branch to continue development. (I went with a tag for my repo.)

Nice! I will create a tag than! Thank you very much for the help guys!