07 X Runner; Transmission noise

Ok, this really sucks because I just bought it from a dealership in March.


The first Noise, I noticed about 2 weeks after I bought it, I started hearing a slight whistling sound which of course I assumed was the serpentine belt slipping and just needed the tension tightened or a belt replacement, simple right, lol If only life was that simple. Because shortly thereafter I noticed that when I pushed in the clutch and come to a stop at about 5 to 10 miles per hour all the way till I stop I started to notice a clattering noise a clattering noise like the sound of a 2 metal pipes rattling together. Then it took me about a month to notice this because I shift into neutral and I don't keep my hand on the shift or usually as I come to a stop however the one time that I did I noticed that I could feel the clattering of those metal parts that I hear from coming underneath the truck in the Shifter. Fast forward to today and now I can feel Slight Sensation in the clutch pedal when I push it to the floor of components Moving against each other. Before noticing the sensations and the clutch pedal when pressed to the floor, I believed that my problem was the pilot bearing and throw out bearing and possibly an input shaft replacement now I believe that The problem might be a bit more serious than that.

Any help would be appreciated because I definitely don't want to be just wasting time buying parts that I don't need and spending even more time replacing parts that don't need to be replaced