No, the CPU and RSP clocks are the same on both consoles. The refresh rate is just changed in software. See, for example:
https://github.com/zeldaret/oot/blob/b4c29fa50b8bd9ffb67138e56032c0432298d593/src/libultra/io/vimodepalhpf1.c vs...
Yeah, hard to say, unfortunately. Since the number of chunks is changing it's possible it could get fixed in the end, but you could just as well be wasting your time.
NTSC games running on a PAL console via a flashcart run at basically full speed. The console outputs the equivalent of PAL60 (like setting a PAL Gamecube to 60Hz mode). As long as your TV supports PAL60, it's fine.
That said, many cheap scalers/adapters do not support PAL60 properly.
If N3DS cartridges fail to verify in the regular build of GodMode9, then you should report this as an issue to the main repository: https://github.com/d0k3/GodMode9
I'm not sure. Since it fails on actual godmode, then I suppose there must be some bug upstream in the base program.
I don't have any n3DS cartridges to test with :c
Which version of the program is that?
I recently updated it because there was an issue with the chunk counter.
If it's the latest (1.6) then try running the fixer with logging and tell me what appears in the logs in gm9/out/
What do you get when you run the fixer with logging?
That kind of sounds like it might be some physical connection-based issue, or that chunk is in the process of stabilizing.
You should also try to delete the update data for the game and redownload it. Could have an issue there.
If the game needs a particular update, then the update is on that disc.
But, yes, you can still download updates from the nintendo servers. You even can for the Wii.