Candidly, in terms of command control, I would make Legacy/TMCC the backbone of my command control system. Legacy/TMCC is a more reliable, less fussy command control interface than DCS. Both the hardware and how the system works is pretty bulletproof. I also use Legacy/TMCC Powermasters to have variable voltage on both tracks, so I can both fine tune the voltage to avoid bulb burnouts on the older cars that lack LEDs, and so that I can run conventional/postwar equipment. I also use the Powermasters on the accessory channels so that operating accessories can also be tuned for voltage and to reduce bulb burnout. 180 watt Powerhouses for each of the tracks also provides plenty of power and the circuit breakers are very fast / sensitive. I also installed TVSs across all of the power drops.
Before the DCS fans come with the pitchforks, we run DCS too, but I run it in passive mode.
I love MTH equipment and generally have found their mechanicals to be more robust than Lionel (and even Williams, who can sometimes ruin a nice locomotive with a cheap detail on the mechanicals), but using DCS in passive mode gives you all the features of DCS but doesn't leave you overly reliant on it as it can be fussy when adding locomotives and with track signals generally. I have run both systems together this way for about 10 years, and I generally am OK, with only the occasional outbreak of DCS related problems that can usually be addressed with simple troubleshooting.
Finally, alot of the fellas posting above are more advanced than I am with electronics. When programing a DCS locomotive, or having any issues with a DCS locomotive, the simple and generally foolproof approach to resolving the issue involves removing all other DCS and Lionel TMCC/Legacy locomotives from the tracks. You can install chokes and what-not but I am not comfortable with that type of electronic related work. Yes, their solution is more elegant, but my layout isn't that big and I can reach and grab a locomotive pretty easily.
In sum, I say keep the systems separate and keep it simple. Good luck!