Transfer mode is PCIE 2.0 x4

@Fernando - Yes, I looked at padding's when I compared stock vs 25/26, but I missed that one! Good catch
This issue can be worked around, and I certainly would have noticed and fixed it if I did the actual edit myself with UEFITool v25, and BIOS would be fine.
But yes, for normal end user, on this BIOS, MMTool is suggested, UEFITool 25 can do it, but you have to do special dance dedicated to the BIOS gods to leave that padding file in place

@Fernando - See, that's why I said all along we should have left in place. My opinion is to leave it all here, or move it all back, and try to not be so quick to jump on splitting/moving posts in and out of threads

And again, just how I feel about all this, it's very confusing for all involved when post are moved, especially while people are actively working on solving something, and I do not feel it would ever help anyone in the future like you may think
I mean, no one is reading huge threads page by page, and whatever search result you get if you actually use search and get valid results, does not matter if the discussion is in xx thread or zz thread.
Sure, maybe that day or next, someone might have to scroll by a few extra posts that don't apply to their question, but that's the internet and we have scroll by stuff to get to what we wanted
Plus, everyone has to scroll past others in a thread like that anyway, since it's not their own specific thread and many people asking questions/replying

And yes, I always download stock BIOS with or without user giving me a link, and compare that, and or or ask for stock FTP dump to compare with mod if I am checking mod for someone.
Along with the padding you noticed here that I missed, you always also have to check all padding (or lack of) above microcode volumes (added, or removed, either can cause issues "Sometimes" depends on the board/BIOS) >> GUID 17088572-377F-44EF-8F4E-B09FFF46A070
And, always watch for some BIOS stock or dump, have a "Non-UEFI Padding file in last PEI volume of BIOS too, if it's removed then often brick too (but not always).
It would be nice if there was a hard line on these things, but it always varies! One board might brick if you remove or add a padding, other board might dare you to do it again and boot just fine

@Fernando @Lost_N_BIOS thanks for your help it all turned out ok. i just need to inspect if i can release some pcie hardware and if that will give more lanes to NVMe. I think that is the reason of it being at half speed.
In retrospect why i might have missed information on the padding is because I initially followed the guide when nvme v3 of the driver was around with older UEFITool version. I had that bios modded and left it on a drive. Took my a while to actually get around doing the mod and in the meantime v4 came out. i just jumped into it and didn't read it again also the guide could have been updated. however in glimpse i remember you actually advised you prefer MMTool, hence i tried that last and it worked.
Bios with v3 of the driver that I had made in the past actually did post the board, but I think i noticed some other strange issues with my computer and decided not to keep it. It could be perfectly usable bios but I flashed it when I was battling with booting issues and didn't see much of a reason to spend time on it. however it would prove the point that previous versions of uefitool might have worked better.
anyhow you can keep my working bios for others to download if you wish to and report it works in some other summary threads, i think i have seen something like this on the forum. it might not be for everyone as i haven't updated cpu microcodes. don't see much of a reason to slow my machine.
last question i have for you is, how can I actually adjust bios version reported by the computer? is there a tool for something like this.

@fernando i wouldn't have guessed that. question is about how to adjust modded bios so gui shows different version.

@Fernando it's not the same bios with nvme driver as a stock one hence the question. why wouldn't you want to show for example v25.8+nvme. what's wrong with that?

@Fernando - Sounds like we're on same page about it a bit now, I mentioned "Leave all here, or move it all back", which you adding link/warning is OK idea to me too, rather than split it up again and try to move some back leave some here etc.
The same warning to compare all padding and or Non-UEFI data files before/after with UEFITool 51+ needs added to the MMTool section as well, it can add/remove padding files just as easily.
This does not only apply to UEFITool edits, although MMTool may not do it as often, it can and does do the same, to any of the multiple padding type files we're discussing here.

@drewstew656 - what CPU are you using? This determines what type of PCIE lanes you have (PCIE 2.0 or 3.0). No matter what, you will only see x2 or x4 for the NVME depending on the NVME itself, this is how they are currently made, but what CPU is used can control the PCIE 2.0/3.0 type.
Sandy Bridge CPU can only to 2.0, Ivy can do either 2.0/3.0. So, if you are using Sandy Bridge CPU the most you will see for current transfer mode is PCIE 2.0 x4, for Ivy CPU you can see PCIE 3.0 x4 (Faster, usually twice as fast)

Where exactly are you wanting to see BIOS version name change? Different places need different edits and some may be a risky edit, and this is an unnecessary modification, but it can be done.

@Lost_N_BIOS you're correct, I figured that PCIe is the bottleneck as well and ordered myself Ivy Bridge Xeon from Aliexpress. once it's here, this 9 year old computer will get a new kick.
With regards to version number, if I start playing with other mods and insert other drivers, I thought it could be useful to know what version of the Bios I am dealing with when I open it in MMTool or UEFITool. It is probably not as easy as editing it in hexeditor, guess Bios might keep some checksums and if not careful I can brick the board with bad bios.

@drewstew656 - Yes, once you have an IVY CPU then PCIE will run at 3.0. You probably could have found a cheap deal on something at ebay.
For your BIOS version name change and reasoning above, that can be solved by simply making a properly named folder to keep each BIOS edit in, or by simply changing the mod BIOS version name at the windows level, one of those things is what I would do.

I keep all mod BIOS body bin files with various names, and then only put final encapsulated BIOS into USB Flashback named file after edits are done, and then keep that in a properly named edit folder.
Any time you are working on mod BIOS, it shouldn't be in a capsule or named USB Flashback name anyway, so this should be a simple thing for you to do as I mentioned above.

Yes, it's not a simple hex edit, well it is at a certain level, but you need to remove modules from the BIOS and edit them and reinsert.
Different BIOS modules that contain this info, show the BIOS version in different places, so where you are looking to see the version change decides what you need to edit (ie boot/Post screen, in BIOS itself, in CPU-z or other informational windows tools, in BIOS editing tools etc)

Sorry for the English from the translator. I have exactly such a motherboard. Using tool 2.6 and flashing through an m-flash, the BIOS crash. If you have the opportunity, share the modified BIOS. And how did they flash the BIOS on the motherboard?
Thanks in advance.