Two things here.
1. Tank crews still load the main gun ammo by hand. When I was in the army (and a loader for an M-1 crew) most of us could reload the gun in around 4 seconds or so from the ready rack. The standard was 5 seconds from the time that the gun was cleared of the previous round. Rounds weighed approximately 35kg for sabot, and 48kg for HEAT. I would tend to consider these to be roughly the same size as a turret missile from Traveller.
I've seen the inside of the Soviet tanks (T-72 and T-64), and I've operated their autoloader. I noted that the autoloaders were very prone to jam, tended to be hazardous to the crew (the guards were removed from the captured Iraqi tank we had to play with), and typically took around 10-15 seconds to reload a round. It did let the soviets get away with one fewer crewman and have a smaller turret though.
The T-72 was actually the export model. Its reload mechanism required the turret to rotate to the next available round in the magazine, max elevate the gun, open a hatch in the turret, eject the spent case, load the new one, and then return the turret to its former position. (or, at least thats the way our toy operated.)
The T-64 was (as we understood it) actually the superior model, and was used by the soviets almost exclusively. It had a rotating ammo rack that would move to match the turret when called for. Slightly faster, but more moving parts. Both mechanisms tended to mangle the gunner's arm if the guards weren't in place and he wasn't careful.
Our (US Army) system was simpler, actually faster, and gave you an extra crewman to help with field maintenance. But it cost us the extra space in the tank, so our tanks tend to be much bigger targets. But we could sustain a much higher rate of fire, and had an extra pair of eyeballs to search for those targets. We also had larger magazines as a result.
2. My take on Traveller magazines was that they held ready reloads for the turret's missile racks. In my mind, this meant that the turret could be quickly reloaded by hand by the gunner. In other words, the rounds are stacked within arms reach.
That being said, there is no real reason that a magazine could not also contain an autoloader. There is also nothing that says that autoloaders will not be much more fast and reliable in the future... keeping in mind that autoloaders are strictly mechanical devices, prone to wear, jamming, and breakdown.
Both methods will work. Both methods will probably completely reload a triple turret in one turn. The trade off is the tonnage. Merchants and passenger craft can't afford the extra space that an autoloader and magazine would require. Military ships can. Merchant ships can't afford to stand and fight... no armor or active defenses (other than, perhaps, sand)... a merchant that stands to fight for more than three missile salvos is in big trouble.
Just my Cr0.02.