Take a look at your 1098-T and check the amount in Box 1. Also, look at Box 5 Scholarships and grants. Subtract Box 5 from Box 1, this is the amount you enter as qualified expenses paid and/or tuition paid.
The waivers should have already been removed from Box 1. You don't need to include waivers as tuition reimbursement.
Student loans are funds that you eventually will have to pay back, so you don't need to subtract what you got in student loans. Tuition and other qualified school expenses paid with student loans still count as paid expenses and can qualify for Education tax credits.
Here is more info on Education Tax credits: What education tax credits are available?
