With so many long posts it's hard to follow and know where you're at exactly. I'm actually not sure how many parts I need to respond to

What Aboron said is accurate and should help (both posts). You shouldn't need to change anything to make it work for your other character sets, the final macro text thing is purely a display issue and solved by changing the team that is being displayed as Aboron mentioned about the * button.

Note that the "press the key combination here" box will currently only detect normal keyboard and mouse buttons (and if you hit G1 and it comes up as F1 in the box, it is from the keyboard's profile pressing F1). All other buttons have to be manually selected from the drop-down as you've discovered.

At the password stage, I turn on keyboard repeater and turn off keymaps.
When I'm at the account/password screen, the numbers above the letters do not work.
I need to use the NumPad to enter the numerical portion of my password.
Once I'm in game, the numbers above the letters work fine again.
They do not work as in even on the current window no number is typed? If Key Maps are actually ON (noting that the first step actually turns them on instead of off), then they're first going to be pressing your assist key, then the number key.

4. In Keymaps (General), Changed FTL Assist hotkey to F, changed the Key Combination to F, and unchecked "But First", and typed /target {FTL} in the Macro Generator window.
You want this one to /assist {FTL}, not /target or /targetexact. Unless you're using something like /cast [target=targettarget] in your action bar buttons I guess, but if your other teams aren't doing that this would be a problem.