The factory OEM thermostat has a small weep hole in the flange, this allows air to get thru it and bleed out into the radiator and hopefully get pushed out to the overflow.
This is what I do with my 'open' system on my 98. Nose uphill in my driveway.
Service system and refill, start it up and let the thermostat open, the coolant level will go down as it sucks new coolant into the engine. I add coolant to bring the level back up into the radiator neck, when the new coolant hits the tstat will slam shut so you gotta wait, be patient, it will open again. You will see that it is kind of fizzy looking like green soda, thats air in the coolant. I keep running it and keep it topped off till the coolant is no longer fizzy looking. I keep the level right at the top of the neck, you can also control it somwhat by keeping your thumb on the throttle linkage, rev it and the fluid goes down and you can add more. Once I have all the air out I give it one final rev, quick dump of coolant and quickly twist the pressure cap on. From then on the over flow will work normally and any excess air will bleed out over the next few days. Oh, before you start fill the CLEANED over flow bottle to the cold mark, you don't want to loose siphon action thats used here.
What I just described takes about 30-45 min start to finish, 45 is closer if you replaced the water pump or drained the block with the block drain which I don't do...