Does anyone have experience running an ME-25 through their computer via the USB port? I have tried it many times with no success. Before, I have used a line from the headphone jack on the ME-25 to the "line in" on the computer. It used to work great but now, for whatever reason, I am getting latency and it is distracting to say the least.

I guess you need to install its driver, did you ?
Connecting to "Line In" is the easiest way, but the worst- regarding to the sound. Try to use Asio4All -universal driver, on that way, significantly reduces the latency

Hello!
I've been using ME-25 for a long time.
Make sure that you have the driver installed.
Which software do you use? Make sure that "In (ME-25)" is specified as an input there.
If you connect ME-25 to computer for monitoring, go to
control panel->hardware and sound->sound->"recording" tab->in(me-25)->right click->properties->"listen" tab->check "listen to this device" box

Thanks guys! I got it up and running. The ASIO is not working with my configuration. However, I have it hooked up with the USB now. I do still have latency but I should be able to work with it.

It's possible that the LATENCY is in your DAW.Here is a spiff vid about setting up your DAW/RIG to have minimal latency.