Yes, but not directly because of the 2496.
If you can select both devices, it means you are not using ASIO.
Both devices support ASIO, but ASIO forces you to choose only one.
In this driver mode, you would most likely get cleaner, low latency results.
I would lean toward using the MM exclusively, and taking the 2496 out of the chain.
Even then, if your latency is set too low, you may still get pops, especially with soft synth.
Play with latency between 5-10ms. Sometimes 1 or 2 ms can make a big difference.
As for the firewire port, the general consensus has been that a TI chipset is the way to go.
If your stock firewire chipset is not TI, that may be worth looking into.