Many researchers have studied vessel systems to enhance navigation safety at sea, or analysed the statistics of marine casualties of different flagged vessels as well as the fatalities and injuries in ferry accidents. However, little research has been devoted to port safety and especially navigation safety within Taiwanese territorial waters where over a 10-year period there have been 3428 marine accidents with 548 deaths and 524 vessels sunk. In this paper, we use the Grey Relational Analysis (GRA) to analyse the marine accident records of each of Taiwan's commercial ports from 1992–2003. Then, after interviewing the port authority managers and marine specialists, we discover the concerns felt by these professionals about Taiwanese commercial ports. We provide suggestions to strengthen port navigation safety.