Stand alone Atmega2560 bootloading and programming

Hi

I have planned to do a standalone project with atmega2560.. to burn bootloader arduino mega2560 as ISP, and to program the atmega 2560 the FT232R - FTDI as programmer..................

will it be working if I do so..

Probably. It depends on your experience and skills. I recommend prototyping with a breadboard and SMD breakout board, and study schematics and ISP programming. You may like this thread: https://forum.arduino.cc/index.php?topic=390148.msg2689865#msg2689865