If don't read, probably won't comprehend much.
Probably Yes. Nothing in Apple's recent roll out blocks that the 1-2 revisions down the road the MacBook having a TB mode. Apple added TB v2 to the MBA. Does that scream abandonment? No.
For the future MacBook is more a matter of space availability ( additional TB controller next to Type-C connector ), provisioning PCIe v3 lanes, and a version of a TB approved connector that will fit the device. Space should come with time ( logic process will get smaller allowing more stuff in less space) and TB v3 ( smaller z height ) options are coming. It just isn't going to come in 2015. Big deal. Coming in 2015 really doesn't say jack squat about commitment to Thunderbolt long term or not. Even more so in the light that word is already out that a smaller z-height option is coming with Thunderbolt v3 ( ~3mm
http://www.extremetech.com/computin...-and-100w-power-delivery-for-single-cable-pcs ). Provisioning more PCI-e v3 lanes will come with next iteration of Core M processor in 2016. There are no long term problems here with weaving in TB.
Type-C " Receptacle opening: ~8.4 mm x ~2.6 mm "
http://www.anandtech.com/show/8377/usb-typec-connector-specifications-finalized
2.6mm and 3.0mm are about the the same size. Both are on track with Apple's "thinner" design constraints.
Type-C supports alternate modes of DP . TB v3 supports superset of those modes ( USB 3.1 , TBT , DP 1.2 (if pure passthrough 1.3 isn't a stretch since simple, very short crossbar), HDMI 2.0 via conversion ). New connectors for both, really not clear advantage either way.
Type-C supports 100W. TB v3 will support 100W. Nothing particularly differentiating here either.
It is highly likely that TB will either leverage Type-C or minimally there will be a very close Type-C like clone for TB. So "thinner and newer" doesn't block TB at all.
Apple probably will eventually go with USB 3.1. Is there USB 3.1 on Mac systems now? Nope. If Apple doesn't jump on board 2015 is that doom and gloom for USB 3.1? Nope. ( Remember back in early Thunderbolt days when genius predictions of USB 3.0 is never coming to Macs was being thrown around? Same fundamentally flawed inferenced BS now about TB going away. ) When Intel weaved USB 3.0 into the core chipset, Apple followed. Same is likely going to be true for vast majority of Mac systems over next two years. Stuck on USB 3.0 because the default chipsets are stuck on USB 3.0. Nothing "Apple hates USB 3.1" about it at all. TB isn't on the MacBook for largely same core reasons USB 3.1 isn't on MacBook; provisioning requires future chipsets.
Apple is going to hand wave the USB 3.1 gap by doing a bunch of marketing two-stepping about USB 3.1 gen 1. That is just USB 3.0, but it sells the illusion that Apple is delivering 3.1 They aren't. What they are probably saying though is Apple is only going to deliver USB 3.1 with Type-C connectors. ( Technically they don't have to but they probably will). They are also likely doing a shot across the bow that Type-A is dead connector standard walking. Just like Apple didn't do a mix of USB 2.0 and USB 3.0 sockets when transition came. Uniformity and only "as many as necessary" is likely design constraints.
Thunderbolt is probably not going into the Intel core I/O chipset. Its placement requirements next to the connector and adoption level don't really justify it. That won't stop Apple from using it. Type-C actually drives the need for a switch on the backend of the connector. Thunderbolt has had and will continue to have a switch as a core component. It fits the need and adds more value ( higher multiplexing ). Where is the huge justification for dropping it??? Race to the bottom system pricing? Race to the bottom cable prices? Systems with fewer ports that also do alot less?
For Mac Pro specifically (since this is a Mac Pro thread)? I suspect Apple will not be an early adopter of USB 3.1. The underlying chipset isn't going to pick it up for multiple years and the Mac Pro is short on PCI-e lanes already ( going from a x1 to x2 USB controllers is spending/diluting lanes they don't have. ). When 3.1 does come to the Mac Pro it extremely likely will come in Type-C connectors though. Folks highly dependent upon Type-A only license key dongles should be activity talking to the software vendors hooked on those
I somewhat doubt that Mac Pro's will be first/early adopter of TB v3 either. Again a PCI lane consumption problem. x8 PCI-e v3 can cover 3 * x4 PCI-e v2. It won't cover 3 * x4 PCI-e v3. The Xeon E5 aren't going to move to PCI-e v4 for another iteration or two.
The Mac Pro has higher needs right now. Better OpenCL 2.x and SPIR support (i.e., newer GPUs). Better SSD. Better AVX 2 support.
With three TB controllers the higher 40Gps isn't all that urgent when sitting on overall 60Gps right now. 40 on fewer pairs make far more a difference when suck with just 1-2 connectors versus 6. 4 USB 3.0 ports will largely work just fine with USB 3.x devices.
And no, the Mac Pro not being the "first" for every new technology doesn't say anything new about Apple's strategic decision making.