anyone flying Navigraph IFR with built in ATC?

how do you do this?

I mean I’ve been doing it and sometimes it works and other times ATC vectors me to high or something else.

do you just put in the route only and then add in the airport/SID/STAR via of your G3000 or FMC depending on the aircraft.

I fly Hondajet and Longitude.

or

something else.

When you say Navigraph are you using SimBrief to input your flightplan into the sim?

Personally I export the SimBrief flightplan into Little Navmap using SimBrief Downloader, make any adjustments such as departure stand then re-export that into the sim. I've found that generally ATC will then keep up with what you're doing, although occasionally I have to "remind" it that I'd like higher/lower levels. As long as you've got the SIDs and STARS also programmed in they tend to work fine too.