How to stop the Agimat EA?

If you want to prevent the EA from opening new trades, then you need to turn off the MT4 auto-trade function. If there are still open trades on your account, the EA will take care of them until all are finished. But since you have turned off the auto-trade function,...

Can I close trades manual?

Never ever! When starting to close the trades manual, you will confuse the EA and the neural network will start to compensate to keep your losses small or winnings big. 
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