Try to get some eng braking in there too.
 
http://www.mototuneusa.com/break_in_secrets.htm

As mentioned, many different formulas. Personally, after doing quite a few "run ins", my basic rules are:

Use a higher gear so increased load, whilst avoiding boost
Higher rpm (~5500) ok but avoid doing so until warm & without boost
First few hundred kms, I take a few very uphill routes (springwood rd late night)
Don't let the car sit & idle for extended periods of time
As MCT said, avoid long boring hwy kms, but when forced to, I tend to slow down a bit so I can load up over & over again
I don't try push an aggressive tune until 5000-10000 km, but I still get a relatively high hp tune after 500-1000km (my current motor did a lazy 300rwkw @ 18psi after ~1000km), upto 8500 rpm

This is for a street car & motor that I want to last as long as possible.

Nice build thread and nice car, would be great to see it at the 30th anniversary event the NSW club is hosting at the end of this month! :)
 
http://www.mr2australia.c..r2play/tm.aspx?m=108225

Can someone confirm;

1. Standard boost on gen3 3SGTE? How many psi?
2. Fuel cut at ??? Psi
3. Any idea what sort of power at rear wheels with dump/exhaust/air?

Thank you

Deco
13psi is the stock gen 3 pressure. Im not 100% on fuel cut but I think it is 18psi on the gen 3 (someone correct me if im wrong). Unsure about what increase you will get...but with adding a 3" turbo back exhaust and a less restrictive intake to mine, I only got a couple of horsepower gain. 

Thanks Deco, just read thru your bumblebee build thread, so around the 150-155kw as stock gen3.

Don't know if you have IC upgrade, but anywhere between 150-170rwkw I guess depending on dyno. Toms car was a bit of a freak & made more with extra boost on stock ecu.

First Track day 9th June 2014 @ Wakefield Park
Due to the wet weather yesterday, it actually gave me a good lesson of how the MR2 behave in the "WET". It was nice to met B24 & Adrian yesterday. Adrian even took me out for a few laps in his yellow beast. 
Went out the first time session and managed 1.14.6 with semi dry track and was hoping the track would dry up later of the day, but end up .....rain, rain & more rain. So lots of " under, under then over, over steer". The tail even came out down the straight as you past the kink managed 1.16 for the second time session. Overall, I had lots of fun and glad the engine was running fine during the whole day without any issue.