You could do that with LUA via teleporting the SSM launchers to/from a bunker if the bunker hasn't been destroyed.

If you don't want the SAMs moving around then you're going to have to not put them in a patrol mission or manually set them all to full stop I think. I don't think scenario makers usually put them in missions, but I could be wrong. They'll still shoot according to their doctrine and WRA regardless of whether they're in one or not.

egg- I've always just included ground/surface based air defense in the AAW patrol missions simply because they are targeting aircraft/missiles and AAW is the only mission option available that specifies the targeting of enemy air units.
As for "shoot and scoot"... It doesn't have to be that detailed for my SAMs. I am however very much interested in applying such features to SSM TELs in another scenario I'm developing. Especially, if at some point in the not too distant future, it would be possible to deploy SSM TELs such as the DF-21 launcher-vehicles from a protected underground bunker from which they can emerge and move to a specific launch site before returning and reloading. Without such gameplay features, it will be very difficult to simulate a counter-mobile SSM campaign.

like here: http://www.matrixgames.com/forums/tm.asp?m=3991832&mpage=1&key=shoot%2Cscoot&#3991832

Even if you do want the SAMs moving (like shoot and scoot) I don't think putting them in a Patrol mission is appropriate since theres no setup/breakdown times. If you wanted to do shoot and scoot I think you'd have to do it with LUA for it to make any sense, they've talked about it over on the command matrix games forum before.

I noticed you're assigning the SAMs and such to AAW Patrol missions, patrol missions make the units move around in their area so that would do that. Any particular reason they need to be assigned to the patrols? Do you want the s-300s and such moving around?

Also- RE: Tomahawk WRA- As the Tactical Tomahawk and future MMT both allow for in-flight targeting, the gameplay has been designed so the player can update the targets manually. Otherwise, they will just randomly select the nearest target within its initial mission parameters.

egg- To your point RE: Ground units moving- This has been a problem for me in every scenario. Thus far the only fix I can find is to manually set each unit to hold position. Selecting "Apply to All Units" appears to make everything stay in place whether or not you want them to. Any suggestions for a fix would be welcomed...
RE: SAMs not targeting... If you switch to the PLA side, you will find that most targets are unidentified and/or the radars are jammed. So afaict this would reflect actual conditions under a SEAD campaign. Whether or not it would really be that effective is debatable.
As for you comment about setting most missions to be removed, I will need more clarification on what you are getting at.

Other comments:
I feel like you should set most missions to be removed if the player is controlling that side, otherwise most of the scenario is already done for you unless you want to rearrange things.

Tomahawk's WRA might use rearranging, they all get shot right at the start against pointless targets at the closest airfield which doesn't seem right.

Is it just me or do the chinese SAMs move around from the start and never actually shoot at anything. Lots of other ground units moving that don't seem like they should be, too.

Fair enough. That's actually an interesting way to deal with issues like that!

You missed the Norwegian F35As in Japan...
As the scenario is meant to take place in 2020, there are a number of planned upgrades, weapon capabilities, platforms etc... which are projected to be online by the 2020s but are not yet available in the database options for the appropriate nation. The Norwegian F35A, for example, is more or less identical to other F35As except in that it includes a loadout for Kongsberg's Naval Strike Missile. As the USAF and others have already expressed interest in this platform, there's a decent chance the NSM will be used by more than the RNAF by 2020.
With the Saudi and South Korean F15s in USAF service, they were added to reflect the recently announced F15 2040C upgrade (http://www.avgeekery.com/what-is-2040c-its-the-plan-to-improve-and-upgrade-the-f-15-eagle/) which includes an AESA radar and IRST sensor amongst other things.
There are a number of other similar tweaks and workarounds if you look closely enough.

Ok, I gotta ask. Why are there Saudi F-15s in Japan and Turkish F-16s in S. Korea? I feel like the Saudi's are a bit far from home in Kadena lol