Looking for advice on install method. Are Rehabman’s install scripts for a NUC similar or as good as a Vanilla install?

I need some advice regarding which install method I should use for my NUC5i3RYH.

Here's the long back story. I have successfully installed macOS on 3 computers. I started by installing El Capitan on my NUC5i3RYH using this guide using Unibeast and Multibeast. Everything worked just fine. Following that I installed Mojave (10.14.2) on a second internal SSD (using Unibeast and the same settings). I wanted to upgrade to Mojave carefully since I need my NUC for work. I decided to install Mojave on a separate SSD, so that I could try Mojave without risking my El Capitan install. I managed to do this successfully but some things like sound are buggy.

At this point I became aware of the Vanilla install method and I was finally able to install Mojave on a Lenovo M82 SFF for my wife (i5-3570, Intel Q75 express chipset, I think?, and a EVGA GT 730 2GB DDR3). I had issues even reaching the macOS installer with the Unibeast method, but the Vanilla method worked flawlessly. It was magical to watch it update from 10.14.2 to 10.14.4 through the native software update! The Ivy Bridge recommendations were amazing.

Thirdly, I installed Mojave using the Vanilla method on the HP Compaq 8300 SFF (i5-3470 MSI? GT 710) that my brother-in-law bought for making a Hackintosh. For some reason I needed to add CodecCommander to the list of kexts to get the installer to proceed but otherwise it worked well.

The Lenovo and HP seem to be working without problems (other than that the HP doesn't like outputting to the DVI to VGA adapter). I haven't investigated all the usual things like sleep or sound, but the Lenovo has been flawless in everyday use for me. It’s harder to investigate if everything is good on the HP since my brother-in-law has it at his house and isn’t much of a power user.

Here is my real question:

Now I am ready to try a clean Vanilla install of Mojave on my NUC. As I see it I have two options:

Option 1: Rehabman has a Clover install guide that does all the ACPI patching, necessary kexts etc. for my exact NUC via some scripts. However, I have two questions/concerns. First, I don't think Rehabman's scripts qualify as a Vanilla install, since I think they place kexts in /L/E. I'm wondering if this is true. Second, I enjoy learning about all the underpinnings of macOS, so I'm not as inclined to run some scripts I don't understand. I suppose I could always take a peak under the hood in the future but I may still not understand what's going on. I definitely want a working Mojave install on my NUC sooner rather than later.

Option 2: Proceed with the Vanilla install. Then hope that I can reverse engineer any of the patching that Rehabman's guides do while maintaining a system that uses Clover hot patching instead of modifying the macOS system files. This seems like a lot of work, and like it might be hard to do. But I think it's important for me that I have a Vanilla install so that I can update easily. It also leaves me with the possibility that I might be working through a lot of problems right now while I am busy at work.

I should note that because of software needed I'm no longer using my El Capitan install for work. I've also set the NUC up with one SSD again, since I need the M.2 slot for native wifi and Bluetooth.

My question is which install method should I use and why? If you can answer my concerns and questions about Vanilla install in the process that would be great.

I think I've read enough elsewhere to ask this question intelligently, but if there's something I have missed or should have searched please let me know! I don't want to be spoonfed, I'm here to learn!