I had unprotected sex a month ago and took the morning after pill 9 hours afterwards. Within taking the pill I had just only finished my period.
A month has gone by and I am a week late but have experienced a couple of blood clots (small) yet no bleeding.
I also took two pregency test kits and was negative.
Because I took the morning after pill a few days after having my period would this delay my cycle?

Yes, it can delay or even stop the next cycle, it can change the time it comes the next month or two.

** This does not mean you are not pregnant of course, since the morning after pill is not 100 percent effective.