In other news, one of the trophies in Peace Walker actually led me to discover something new and pretty interesting about how Outer Ops works; the kind of soldier you send in actually impacts the operation a great deal.
Each soldier you recruit have a "class" associated with them, but the game doesn't really tell you about this, as the focus is on what their best characteristic is (are they best suited for Combat, Mess Hall, R&D, Intel or Medical) and what skills they possess (some enable development on certain weapons and items, while some have special abilities if selected for missions). Outer Ops is where this all changes, because the class that your soldier is in impacts their loadout. A Scout will use long-range weapons, Commandos use more explosives and whatnot. This is actually really important when you get into higher-ranked missions, as they start being populated almost entirely by vehicles and a Scout using even the best sniper rifle is going to be completely worthless.
tl;dr version: if you want to get that trophy for beating Capture the Enemy Base 06 with just soldiers, make sure that your whole team is comprised of Elite Commandos.