HTC Incredible :: Not Receiving Text Messages - Why?

I seem to in almost all instances not be receiving text messages. This is definitely hit or miss. I've determined it's not service related as it's only happening to me, and it's not location related. It's not related to the services of the people texting me. It's definitely not every single time, but it's a lot. My messages seem to be going out without a problem. After extensive testing I seem to have narrowed down this problem somewhat. There seems to be a problem with the messaging app on my phone. I determined this by downloading Handcent SMS. The moment I did this, I started receiving text messages again consistently and without problem. Uninstalling the program put me int he same place I was before. Can anyone determine what the problem may be with this additional information. Perhaps I have done something ill-advised to my phone so here is as much information about it that I can think of:

Firmware Version - 2.1update1
Baseband Version - 1.00.03.04.06
Kernel Version - 2.6.29-cc1c2268 htc-kernel@and18-2#1
Build number - 1.22.605.0 CL161493 release eyes
Software number - 1.22.605.0
Browser Version - WebKit 3.1
PRI Version 1.28_002
PRL Version 51920
ERI Version 5

I am running a 2.1 rooted phone with (as far as I know) the stock ROM that came with the Incredible (prior to 2.2). I purchased the phone with 2.1 and it did an OTA update to 2.2. However there were so many problems with the update that I decided to go back to 2.1. I did this and rooted which seems to prevent the OTA update even though I don't have a custom ROM. In addition to Rooting, I disabled (using the method of moving the files to a disabled folder)
CityID
Footprints
FriendStream
Peep
Teeter

Aside from this and installing some apps, I haven't done anything that I can think of to the phone that may have caused this problem. There are only a few apps that I've installed that I didn't have before downgrading and rooting my phone.
Wireless Tether
VLC Stream & Convert
Startup Auditor (Messages has NOT been disabled)
IncrediLight

I do occasionally receive a text message but it seems more "miss" than hit. As far as I know, I was not having this problem before I went to 2.2 (and then downgraded back to 2.1). Since I'm back at 2.1, I don't see how it should be any different from before unless I did something. Seeing as how it doesn't look like anyone else has had this problem after rooting (as far as I've been able to see in the forum). I'm hoping I've missed something. I've tried *228 option 2 (and option 1). Nothing else seems affected, not call quality or email or any data services that I can tell. I'm of course perfectly willing to completely reset my phone but only want to do that if it will actually do some good.