Affordable Schools created a methodology that took into consideration the University's US News overall academic ranking and the number of NCAA I Individual and Team Champions. With that data, they created a list of the top 25 colleges for student-athletes.
Here is their top 25 - http://affordableschools.net/25-best-american-colleges-student-athletes/
For a more specific look at the top programs in track and field/cross country, I am attaching the USTFCCCA "Program of the Year" results thus far - outdoor still remains. In order to be eligible for the award, teams must qualify for each of the NCAA Championships. Scoring is based on the team’s finish at each NCAA Championship in cross country, indoor track & field, and outdoor track & field (i.e. 1st = 1 point, 2nd = 2 points, 31st = 31 points) with the lowest total score for all three championships combined determining the award recipient.
However, there is nothing to suggest either of these lists are applicable to you. Neither takes into account your academic major, event, college geographical and size preferences nor costs of attendance. So basically, just do your research!