HTC Honored After Dispute
Just thought I'd share my experience for anyone else wondering. I originally sent my phone in a week ago. Did the express option. After shipping the phone back received an email about two days later with the title" Your HTC quotation is ready". After clicking the link I see a that the quote is for $290, and the reason is illegal software.
Before sending my phone off all I did was a wipe. My phone was sent unlocked and rooted with ARHD 8.0 Rom and TWRP still intact. I called HTC the next day and filed a "quotation dispute ticket". They asked my reason and I said basically the screen was cracked due to physical damage and clearly no software installed on the phone had any impact on that. Got a call last Thursday (July 3rd) from an HTC repair manager. He apologized for the inconvenience and stated that after reviewing the phone he could see that it was unlocked but was still running HTC Sense rom, and was not overclocked or altered in other ways. Due to this they would honor the screen replacement. Got an email this morning saying the phone was sent out next day air, and should receive tomorrow afternoon.
Thanks HTC! I think the main issue they see is people installing GPE based roms or overclocking. It seems pretty standard that any unlocking will automatically red flag the phone and shoot out an automated quotation email for the $290. I think simply opening the dispute has someone take a deeper look into your issue and more times and none HTC will honor the replacement.
Hope this helps!