CT Scan costs range from $1,200 to $3,200; they usually cost less than MRIs (about half the price of MRI). MRI costs range from $1,200 to $4,000 (with contrast), which is usually more expensive than CT scans and X-rays, and most examining methods.Time taken for complete scan. Usually completed within 5 minutes. The time taken for total testing is shorter than taken by MRI. 2  MRI cannot be done on patients who are claustrophobic as the patient has to remain inside the noisy machine for about 20-45 minutes. 3  CT scan is cheaper than an MRI. 4  A CT scan costs $1,200 to $3,200 while an MRI can cost up to $4,000.