I configured one ZigBee as coordinator AT and another as Router/ End device Digital I/O.

XBee & XBee Gateway XBee - 802.15.4
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But router is now not recognising,and how to reset ZigBee default values?

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You are going to need to use the recovery function in XCTU to load the Router/End device AT firmware on the module if you want to have UART access. The Code you loaded is designed and meant for the DIO adapter product only.