I'm not sure if I posted in the right section so if not tell me so.
I have an Arduino pro mini and I programmed it with an Arduino Uno as isp to reduce the booting time.
I am wondering if I could reprogram that board with an FTDI programmer for other projects..
No. As you programmed it via ISP, the bootloader was erased. The bootloader is necessary for uploading via serial (FTDI) so you have to upload the bootloader e.g. by the same way with UNO as ISP.
Yes, connect the ISP programmer to it the same way you did to upload the sketch via ISP, select the appropriate board definition (for 5v pro mini, I would select Uno as the board - thereafter, when uploading it, tell the IDE that it's an Uno. This gets you an extra 1.5k of usable flash for free!), and do tools -> burn bootloader.