Stupid update cause my root to be gone and I install kingroot and then it show su binary occupied had a hard time uninstall but I finally uninstall supersu v2.81 and i check with root check and now I have root again but this time with Kingroot.

The only part I'm not clear about is resigning the APK - no clue how to do this.

Install ZipSigner. It can sign zip/apk/jar.

Any Windows Commandline version as I m skeptical to trust APK's after Fiasco of SuperSu..

Much easier → use this Windows tool:
Just download the package from https://forum.xda-developers.com/crossdevice-dev/sony/tool-zip-apk-jar-signer-windows-t3095709.
Important: no blanks in the apk name allowed, otherwise the signer is unable to recognize the file!

Chainfire has posted comment to stick on 2.79. Fortunately, my OCD to keep the app updated was held back by previous post. Always love mobilism for its prompt user report.

Just installed v2.82 from blackmart to test. Working fine in my Redmi Note 3 after rebooting.

Edit: Here it is for those who want to test. http://www104.zippyshare.com/v/1sA7k51t/file.html

So why don't you offer it to all of us?