Check in the electrical control of your machine to see if there is a "Data Management Card". They are normally shipped with every machine and have The "Stroke End Limits" for your machine recorded for each axis. Reenter the values recorded to see if that fixes your problem. (of course record old numbers first in case you need to go back to them)
Once your numbers are correct, you should be able to jog left, right up, down with no alarms for "stroke end over".
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