What kind of floor is it? Coming up through linoleum?

yea you can only see it through the linoleum. it hasent went through the linoleum but you can see them humping up.
It looks like presswood flooring.

That's a tough one! First thought is to remove nails that are "popped" amd replace with coarse thread drywall screws, 2 1/2" long into joists. However, you'll have to replace tiles. Good luck!

Rothglenn, removing and replacing the nails that have popped won't necessarily keep the remaining ones from popping in the future, will it?

try taking a hammer and nailing them back down,i know its a simple answer,but have you tryed it?

Well, I pulled up the linoleum on a spot where I could see and what’s sticking up are screw heads, where whoever put down the new floor did not counter sink the screws into the wood. I just had to look when I hit them with the hammer and nothing happened. That stinks because the linoleum is new and it’s the hardwood floor looking stuff I’m not going to worry about it.

Unfortunately, if you let those popped screw heads just stay as they are, you may eventually end up with holes in the lino from walking on them. So that little popped screw problem turns into a "holes in the floor covering" problem.

You said you were able to get a section of the lino up. Is it possible to get to all the areas that have pops to countersink, or is the lino stuck to the floor?