What does shutdown mean for a two way player?

I would go with a progression.  Do nothing but xbox and Cheetos for a week or two -- ok no Cheetos but take some time away.   Then I would start a progression back.  Start lifting and working out.  Any throwing should be light - no max velocity stuff.  As the season gets closer, then start to increment the throwing.   

My kids pitching coach and his program's strength and conditioning coordinator shut down throwing arms completely from now until 1/1.  Which is about 90 days.  No real throwing.  Yes they are allowed to toss a ball back to someone if they are at a workout session or camp and someone throws a ball their way, but no real hard strenuous throwing.  They are allowed to follow the workout prescribed to them by the their strength and conditioning coach and are highly discouraged from using other type of strength workouts.  Though their S&C coach's primary job is with an MLB team.  He works with our kids "on the side" and does not receive any pay for it.  Based on the folks he works with I would say he pretty much knows what he is doing and follow his advice pretty closely.

My son's coach has a 12u and a 17u team last year, he did the same two part "shutdown" for both.

Part1:

-Absolutely no pitching from 11/1-1/1

-Absolutely no throwing a baseball PERIOD from 11/1-1/1 (no position, no one)

-Players were allowed to throw a football into a net with a similar pitch motion, crow-hop....etc, but never with a baseball

-Players worked the rag drill for pitching motion.

-Speed/agility/strengthening training.  MANY stretches to work on flexibility (kind of looked like yoga to me) then the obstacle course, think of a dog show obstacle course..yup, jump up on this stool, jump up then lay flat and roll under this rope, footwork speed drills in a ladder, various stations of cruelty involving medicine balls, push-ups on walls while your feet were about 4 feet away from the wall, one team member wrapped up with a giant rubber band pulling a teammate across a gym floor, wheelbarrows where the players legs were help up by another player and they had to do a hand walk across he floor, timed plank position holds, timed push ups..etc

-Hitting happened every week, that was never shutdown.

Part 2: (the ramp up)

-First week in January the players got to lightly toss the ball back and forth, still not pitching.

-Second week long toss was allowed, still no pitching

-Third and fourth week pitching was allowed at about 60-70%, but long toss was mandatory prior to.

-First week in February pitchers were allowed to work their fastball and change up at full speed, but only 10 reps per practice, 2x a week, long toss continued.

-Mid February long toss continued, pitchers allowed to go 25 full speed pitches one time a week other pitches were allowed.

-Last week in February ramp up was over, real season training began

I can't speak for the 17u team but the 12u team only had one injury ramping up this way, and it turned out that kid was playing for his middle school team and not ramping up like the rest of the team.

Thank you for the detail