I worked with muslin for my DIY traps. Mine were simple broadband (polyester + muslin + bubbagump hanging method), but I'm actually replacing them with ReadyTraps now for the same reason you're having trouble: it can be difficult to get these DIY projects to look as professional as a pro's job would.
For your situation, I would not recommend dying the muslin at all at all. It will most likely not go on evenly and you will have a worst problem than when you started. Additionally, it may clog the 'airy' nature of the fabric and start reflecting high frequencies.
A better option would be to find a way to remove the gorilla tape from under the muslin or tape over the gorilla tape with a basic 1-2" wide off-white masking tape that should camouflage it quite well.
If you post a picture of how you did your traps and the Gorilla Taping, I'm sure other suggestions, if you need them, will be more immediately apparent.