Yes, alternate triggering is very handy and I'm amazed that the Rigol DS1054z doesn't have it.
The DS1054z also has 1 megohm input impedance only, so I recommend picking up a 50 ohm thru-terminator or two for those times you need or want 50 ohm impedance (like direct connection to a FG for example.)
Rigol also makes a very nice semi-hard bag/case for the DS1000 series. It's a bit more costly than some other generic scope bags but once you see it you can see it's worth it, if your scope ever does travel duty.
So instead of having a dedicated alternate trigger i have to use of the other channels right? Also do terminators need to be of high quality. Can i just pick them up off ebay or should i buy with my scope? Tequipment has a kit that is the ds1054z with 50ohm impedance adapter for 408$ so 9$ for the adapter.
Alternate trigger, as used here, means that the scope alternates the "trigger channel" between all channels in use, so that signals with unrelated frequencies can be displayed stably. The DS1054z does not have this capability. External triggering is different. Most 2 channel scopes have an external trigger input which allows you to trigger the scope from a different signal than the two that are displayed. Many 4-channel scopes don't have an external trigger input so you have to use one of the 4 normal channels for triggering. This effectively makes it a 3 channel scope with external triggering....
As far as high quality terminators... sure, get the best quality you can afford. The normal cost of the Rigol thru-terminator adapter is 18 dollars IIRC (I have one) so that sounds like a good deal to me. The Ebay end terminators + BNC T is also a working solution, if everything fits right and holds up well. But a through-terminator (aka adapter) takes up less space and may be easier to work with in practice.