The purpose of this study was to explore the changes of physical fitness of freshmen over a 10 year period. Moreover, the physical fitness of students attending the College of Engineering, College of Electrical and Computer Engineering, College of Management, College of Applied Arts and Sciences, were compared. The descriptive statistics and one-way ANOVA were used in this study. The participants included 9,359 freshmen from 2002 to 2011. There five point results were as follows: First, freshmen were within a ”normal” body mass index (BMI) range during the past 10 years. Second, females had no significance in flexibility but males had decreased the trend. Third, freshmen showed improved performance of abdominal muscle endurance (sit-ups in one minute) in 2005 and 2006 than in previous years. The average abdominal muscle endurance of physical fitness literature was in ”general performance”. Fourth, the trend of standing long jump and 1600M/800M run-walk had decreased for freshmen. Finally, the students of the College of Management and College of Applied Arts were performed better in flexibility and standing long jump, while the College of Engineering and College of Electrical and Computer Engineering were better in the 1600M/800M run-walk. In the BMI value, there was not too much change, whereas flexibility, power, and cardiovascular fitness had a decreased trend, causing students' physical fitness uncertainties in university. The overall government policy, and school policies, will be of paramount support in promoting students' fitness and health. The fitness database built year after year, combined with the e-portfolio of the student, and increased students' exercise participation, from passive to active, may be a long-term goal of physical fitness in universities.