No it wasn't a joke. I thought Dan would post a link to the Yahoo Gaggia user group found here
http://groups.yahoo.com/group/Gaggia/There you will find nearly everything you want to know. You have to join the group to access the information they have, but they have a lot of information.
Flushing water is not bad, as in it will not hurt your machine. I try to allow the water to sit in the boiler undisturbed for at least 5 or 6 minutes before pulling a shot. (Two boiler cycles)The reason I do not flush the Gaggia is that it only has a 3.5 oz boiler which is very small, and the thermostat is mounted externally on the boiler wall. What this means is the thermostat is reading the temperature of the boiler wall and not the water inside. This is proven by the very short initial heat up when you first turn the machine on. The side wall of the boiler heats up very quickly because the boiler coils are embedded in the boiler wall. The heat transfers along the boiler wall to the thermostat and cycles the boiler off. The water on the inside however is not actually at brew temp. It will quickly cool the boiler wall and the heating element will cycle again. The longer the water sits in the boiler the more stable the temperature becomes. Keep in mind any water you draw out of it is replaced by room temp water that will upset what is already fairly poor intrashot temp stability. It is so poor that I don't think you can even consider the term when discussing a Gaggia. That does not mean it is a bad machine. I produce very nice strait espresso with my machine I just heat my cups with water from a kettle or with tap water and the microwave.
The group head on your machine is attached to the base of the boiler. It has the entire boiler volume sitting just above it, so it is not really necessary to heat the group prior to pulling a shot. If you fill your cup from the boiler and your cup is larger than 3.5oz you completely empty the boiler and replace the hot water that was inside it with room temperature water. This will ultimately cool the boiler causing the element to cycle again, and it will take 2 or 3 boiler cycles to stabilize again after completely draining the boiler. Sit around with a stopwatch one day and record the boiler cycles after the machine has heated up for 15 minutes. After recording a few cycles pull a full cup of water and record the boiler cycles again. You should find that after heating up for 15 minutes it takes between 4.5 and 5 minutes consistently between boiler cycles. After you pull a cup of water the heating element should begin to cycle before you finish filling the cup, then again in about a minute to a minute and a half, then again in another 2.5 to 3 minutes. I have noticed it can take as many as 4 or 5 boiler cycles of undisturbed water to reach a cycle rate greater than 4 minutes. To me this cycle rate represents the machines peak stability.
As for locking the portafilter and waiting for the boiler to cycle before pulling the shot, I personally would not do this. It could overheat the coffee grounds and leave an ashen taste in the cup. I find that after the boiler cycles the shower screen is hot enough to flash boil the first bit of water that comes out. This would easily be hot enough to affect the taste of the shot. To remedy this I simply wipe the shower screen down for a couple of seconds with a cool damp rag before I pull the shot.
This is what I do with the coffee I am using for my taste. You may find that your coffee tastes better at a hotter or cooler start temperature than what your machine provides with the thermostat. In that case you can either pull a measured cooling flush or flip the steam switch after the boiler cycles for additional heat prior to pulling the shot.
I hope this is helpful in some way.