I assume you pass the home theater through the C2700. Is this correct or are you doing something custom? If custom it might not work for you.
The CR-1 is designed for two channel music. Out of the CR1 you will have a right and left lead to the sub/subs.
If you have two subs you will have a right input open on the left sub and a left inout open on the right sub after connecting the CR-1. You could then run the LFE line out of the MX160 to the open inputs on the JL subs. This will work fine as the two inputs are summed. You will then be running the subs both crossed over to the mains and the LFE of the processor at the same time.