They don't?
One's a full-sized pick-up and the other is a mid-sized SUV. Fit & Finish, design ideals, and overall goals in production will be different. Not to mention that Ford hasn't ironed out their aluminum repairs yet and you can't get a V8 in them anymore... I'd wait on them a bit.
What criteria are you using to compare the two vehicles? What do you need the 4Runner for that the F150 can/can't do and vice versa?
-Comfort? (ride quality, interior comfort, road noise, ect?)
-Handling? (on-road, off-road, agressive driving, ect?)
-Towing?
-Build Quality (I mean the F150 is a high volume domestic product designed as a work vehicle, I would imagine build quality is less than the 4Runner's but not entirely horrible...)
-Modability?
-Fuel Economy? (Towing/Non-Towing, Normal vs. Aggressive Driving, realistic fuel mileage, ect.)
-Overall reliability/quality (questionable on the EcoBoost & all aluminum body, ect.)