To NicholasJacquet.
I am not sure why you are so concerned about this. If your Youtube vid is an example of what you are trying to achieve, it's easy. Here's how.

Pick a key.Any key,doesn't matter.
Now pick a scale, again any scale but preferably an obscure Himalayan Tibetan altered,or something like.
Next fill in any gaps that are between the scale notes. We don't want to have any notes getting lonely. This will help with even wear of your strings and frets as a side benefit.
Now,this part is crucial, take the scale you have formed, cut it in half,and stack the bottom on the top.

Good to go. To practice this just stick a blindfold on,and play the first thing that comes to mind. It doesn't matter,just play any combination of notes, but try not to repeat anything. Any timing is fine,and you can even change keys if you want. For extra flavour, try bending each note micro tonally different amounts. Don't worry about your inner ear, it's fine. If you try to cram stuff into it, you will get vertigo and fall over, and break your guitar or leg. Then you will need more than a Major or minor scale as a crutch.

To make it all come together,just make sure any one accompanying you is playing in a different mode of your altered, filled in, added to, split, stacked scale.

To each their own,but that does absolutely nothing for me. Shawn Lane, Hell yeah, but these guys. Nope.

Hi there,
Nope,you aren't doing anything wrong.It is actually fairly simple and not that uncommon what you are doing. Explaining it is more complicated.
For the most part,you are playing two notes per tick. The metronome or drum machine is clicking away with no emphasis. It could be 2/4, 3/4, 4/4 etc. When we listen to it, we try to hear a repeatable grouping. But, because there are no Rhythmic or Volume accents we take the note change when you change strings as a stressed accent.
If we put a a stress at the start of every 4 beats of the metronome, we would call it 4/4 with quarter note beats. You are playing groups of 9 eighth notes, so all that is happening is a displaced rhythm. When you start on the second string, the stressed accent is on the upbeat. The rhythm is being displaced by 1/8 note each bar.

Try accenting the start of every group of eight notes with a slightly harder attack, while still playing 9 notes per string, and you will hear a difference.

Another way of looking at this is, the metronome could be clicking eighth notes and you are playing sixteenths.
We could then say you are playing 9/8 time. This is compound time, three dotted quarter notes that break down into 9 eighth notes (3 groups of 3) . Each of those can be broken into 2 sixteenth notes. So,every eighteen notes you start a new bar, that's 9 notes on the E string and 9 notes on the A string.

Or,you could say you are playing 3/4 time. Two eighth notes per beat. You are then displacing the rhythm over 3 bars. That is, every 3 bars the pattern repeats, 3 bars of Eighth notes in 3/4 time = 18 notes, which is two groups of 9 notes on each string.

Try playing just 3 notes per string or 5 or 7. You will hear the rhythm displace because of the string note change accent.
Now try playing a 3NPS scale with the same timing.

So ,your wife is partly right, you are implying an accent on the off beat, but you can tell her you are playing a displaced rhythm or in 9/8 time. Bang a few accents in there and it will sound cool.

Another way to hear this work would be to play a repetitive 3 note phrase, say G A B on the E string. Grouped in eighth notes this would be

GA BG AB GA / BG AB GA BG / AB GA BG AB / The rhythm now repeats every 3 bars. Hear how the rhythm seems to rotate? Even though you are playing eight eighth notes per bar.

I think the whole reason you started doing this was so you could play alternate picking with an economy pick to cross strings. Starting with a down stroke,this necessitates an odd number.
Try the same approach with 3 notes per string. It will still give you the same picking pattern.

Sorry for long first post.