Try slowing down the max acceleration and max speeds of the motors in Marlin (or whatever firmware you're using). The defaults in Marlin (and other firmware) are NOT necessarily suitable for all machines, so you need to tailor them to your machine/motors/etc. I would simply halve the values one at a time till you get reliable operation, then you can work your way higher toward the last value you had which didn't work. Eventually you'll find a stable value that works reliably.
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