I know I'm probably wasting my time, people love to goop stuff up, but I'll give it another go...
The EDPM only needs to be over lapped by a small amount (4-10"), but a little extra is OK. The overlap of course should be sloped down stream and not be in standing water. The trick is to place a gap between the 2 liners to stop capillary action.
If you use any goop you have to let it dry before laying the top layer. I know that goes against all newbie logic of goop being a solution to all issues but if you read a little about capillary action you'll understand why gooping it up can create a worst leak.
Just to get a little ahead, after you ignore the above and goop it up, your next question will probably be how to fix a leak. You'll be able to fix the leak by removing all the rock and removing all the goop, and doing the above. However there's a very good chance that your leak will be very small and you won't even notice it, so gooping it up does work, by some standard.
Because I know the desire to "stick" things together is so overwhelmingly strong for people new to this stuff I have a compromise. Use double sided foam tape to create the gap...I mean stick the two materials together. Has to be back away from the liner end by at least 2" I'd say. That way you can think the material are "sealed" but still have the gap so no leak, at least from capillary action.
Sorry for the sarcasm...it's meant to make a point. Most people (like 95%) asking questions will choose the most complex, expense, and least effective method they hear in a forum. Not really their fault, impossible to make a judgement call without experience.
Just for background...there is no way to "seal" most dissimilar materials, especially plastics. Professionals call it welding. For example PVC "glue" is more precisely a solvent for welding PVC together into a single piece of PVC. Things that are glued or gooped together remain 2 separated pieces with another material in between. There are some materials that can be glued together to form a long lasting water tight bond, but they are rare cases. Water is very good at getting in between materials.