Lactate threshold with hills are... odd. They aren't right or wrong, they just have some catches to them that you've already noticed. Since coaches don't (usually) have access to lactate testing, especially in a setting with hills, it's hard to rely on a lot of data with things like "zones" or "%vVO2max" or whatever the flavor of the day is that a particular coach likes.
Syracuse in the past loved doing long gradual tempo runs uphill. I think FloTrack has a video of one of their sessions that I think was a steady 4 mile uphill that they liked because it was consistent, allowed slower paces (and by extension less pounding), but still hit the intensity levels that they were looking for. I'm sure there was also a sort of X-Factor that they liked being that it's such a unique stimulus that most programs don't touch or have access to.
For most of us, hills tend to be more rolling or maybe the tempo course that you're doing has a few notable hills along the way. In those cases you're going to notice spikes in effort; I believe that's what you're trying to figure out here. If tempos/LT sessions are meant to be a steady effort in the "correct" intensity level then surely hills that leave you gasping for air and change your pacing drastically run the risk of falling outside of that "correct" zone, right?
In my experience, seasoned runners (I work with collegiates) who know how to read effort levels well can encounter a hill, maintain the effort we want, and get through it without feeling a spike in acidity (i.e. feeling battery acid flood their legs). They will absolutely notice higher heart rate (HR) and breathing rate, but provided the hill isn't too steep and they aren't already near the redline, most don't notice a big interruption in the workout.
Since some like using HR to monitor if they're playing in the right sandbox, it makes putting hills into tempo sessions a nightmare to monitor. Hilly tempos are one of those sessions that you need to be comfortable with the idea that you're not coloring in the lines perfectly; some segments will have more of an anaerobic component, some will be more aerobic.
If your route is super hilly, how can you actually work your LT without going over?
Think about it more as the average LT. Building up more acidity during a hill isn't a bad thing if after the hill your body is learning to use the built up lactate to drift back to the equilibrium that we're aiming for in MLSS (maximum lactate steady state). The danger comes when each hill mounts more and more acidity each time to the point that you can't keep up with it. In this way it's almost like how you body would deal with something like 5x1600m slightly faster than LT. It's still working (almost) the same area, the reps are just a little above what you can handle properly for a 5 mile tempo, but the rest between lets things calm down enough that the overall workout behaves similarly just at a faster average pace and a few breaks in between.