I don't know if you have tried this or not, but do you have desense with the duplexer into a dummy load? Or does it just show up when you hook up an antenna?
Switch mode power supplies are famous for putting out noise on 600kHz, such as found in battery chargers in boats and RVs. We recently had a problem in the area with 'The Beast' desenseing a .94 box. It turned out to be the site owners son's electric shaver charger. If this is true you only get desense when the repeater is transmitting, but it will appear on both the + and - offsets. To find the source of the problem walk around the area with an AM radio on 600kHz, or some fox hunting gear on the repeaters input. Turn down the power output of the repeater so you don't false the hand held but still have desense. Other things to look at: If I remember right this cavity has removable loops, check the solder joints between the connector and the loop and the loop to the capacitor. Your tee's may also hold some truth to the mystery, If you can not verify whom manufactured them you may wish to examine one by cutting it open with a dremmel. Some times people 'borrow' a good connector or tee and replace it with el-cheapo trucker's choice made in china goodness, of which you cut open and find steel springs.

