UHHU! I see! From my experience with the 4900 and the Initial Fill cycles, you can get 1 initial Fill out of the chips, then they should read around 1/2 to 1/4 Full. The Epson driver then will not allow you to run another Initial Fill until your Chips read FULL again. To make this happen with these Aut-Reset chips you would have to run them down by printing Purge Images through QTR Calibration mode OR replace the chips with New ones to read Full.
Please tell me how you got the chips to read empty after the 1st Initial Fill was complete?
I am sending you a replacement LC chip in the mail, BUT I really want to try and solve this before the other chips end up with the same problems. As for your cartridge physically having 75% of the flush left in it and the status monitor reading it as empty, there must be a stubborn clog at the end of the channel preventing the flush from flowing. The printer is reading ink levels based on Initial Fills, Head Cleanings and/or prints, it has nothing to do with the actually ink levels in the cartridge. So, you printer thinks your cartridge should be following freely and using certain amounts of ink for each of these functions, there is no physically measurement device inside the cartridge telling the printer what the levels actually are.
What other dead channels did you have before flushing the printer? Was VM one of them?