Just ask the machine shop to measure everything and let you know what they recommend you do..........but I can tell you they're going to say it needs to be completely gone through, because that's what THEY want to do. Just make sure you get an estimate BEFORE they do anything to it.......you can dismantle it all and take it in to them all at one time.
When you take the engine apart, make sure the rods are numbered 1 through 4, they should be from the factory....Mazda marked everything or it was cast into the part. When you pull a piston out, re-assemble the cap to the rod as it came off, and keep the old bearing in it also, this way they can measure it all if they want to......the main bearings, toss each one in a ZipLock baggy and number them 1 through 5 or place them back in their locations, screw them back onto their respective journals and tighten them snug. Don't try to remove the pistons from the rods, the machine shop will do that.
If you want this engine as good as you can get it, then do a complete rebuild on it, which means boring the cylinders, buying new pistons, a new oil pump, so on and so forth.......just be ready for a hefty bill of around $1800.00 or more.
I'm going to try to list everything I have bought and what I paid for it in this thread on my engine here......hopefully during this weekend, but we'll see.
The oil pump alone is going to be in the $300.00 range as it includes the whole front timing chain cover also.
Here's my new Melling pump I bought from Amazon but it came from Northern Auto Parts.
Made by Top Line it appears.
I will have to grind on it before it ever goes on the engine though........sometimes when you buy aftermarket parts, they aren't machined like the Mazda ones were.
Here the harmonic balancer will hit this area where it isn't machined far enough. A guy on MazdaTruckin had this same problem on his new aftermarket pump.
I paid $253.00 for this one, shipped.
Bottom line, don't worry about 'not being in the know' or what kind of verbiage to use, just let them know you want it done right and to please give you an estimate on what it will cost to get it there.......most guys that do this stuff are pretty easy going, around here anyway.