Get an extra check valve
"A bit fussy to set up but works well. For those wondering, put a check valve close to where the co2 tubing meets the diffuser, even if you have one at your reactor. Unlike the tubing on an in aquarium diffuser, your co2 line might not be so vertical and when the pressure isn’t forcing the water back it’ll fill your line. Maybe others knew this implicitly which is why I couldn’t find the answer online"