With LosslessCut, I've had good success with doing keyframe cuts with h.264 footage in MKV containers. Frame cuts end up in broken outputs pretty much every time. There's also Avidemux, which might be worth a try. More than likely though, if you want frame-precision in your cuts, you'll have to re-encode, at which point you could use something as minimal as Handbrake or a full NLE editor like Kdenlive.
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