[quote=@Gaebrael]
Which would essentially translate to No Cavalry or No Fleet, in my case, since it would be odd to have just one section of the military for some odd reason existent and just really bad versus having like one or two squads or one capital ship that are modern and worth the same value.
[/quote]

That is entirely up to you. If you take those flaws, then yes. You can choose to have no fleet or Cavalry.

[quote=@Gaebrael]
The one other flaw I was going to take was:
[s]Serf[/s] Slave Militia: The armies of your nation are far and few. In order to fill the gaps in your rank, your nation must place [s]peasants[/s] debtors and [s]serfs[/s] slaves among the ranks. Unskilled and weak, they are merely placeholders within your empty military.
Now, the clarification with this one is that the way I was planning this, the nation's capital and lush provinces would have all of those fancy military traits I got, and then the desert army or oarsmen (depending on where I place my nation) would be mostly slaves. So really, the traits would apply to two very different armies.
[/quote]

Taking this flaw with more powerful military traits would essentially cut your military in half. You get the boons to your actual military, but a large portion of your forces would still be untrained slaves. The flaw weakens your army as a whole, but the other boons you took could help balance it out. So as a whole your army would be weaker as a flaw, but certain portions could be strong, yes.

I hope this helps answer your questions. Feel free to clarify if I messed something up.