You may have noticed that on certain units there appear to be two pins that are bent or out of alignment on an RJ-45 port.  Here is an example of what the port/pins look like on a CyberScope.

 

These are pins 3 and 5 and do not affect any other pins. Keep in mind this is very specific to the units and ports listed below, so you will not see them on every port.

 

EtherScope nXG, CyberScope, LinkRunner 10G   Side Management/Wiremap Port

LinkRunner AT 3000/4000   Top Test Port

 

There is nothing wrong with the port, and it will continue to function for intended purposes.

 

The unique contact geometry (pins 3 & 5 visibly different when looking into the jack) is an intentional design feature that provides increased transmission performance at high frequency.  These are called "forward facing" contacts.

 

The backward compatibility of the RJ connector interface carries with it some features that are detrimental at modern data rates. One of those is the "split pair" as illustrated below, pair 3 is split and surrounds pair 1 (source ANSI/TIA-568.2-D). The forward-facing contact design feature compensates for that using signal integrity concepts based on transmission line theory. Essentially the unique contact geometry is for impedance matching as one part of the plug/jack transmission line, thus modifying the inductance, capacitance, and impedance of the transmission line through the physical design of the connector.