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Soriku said:

Xenosaga does that. In games 1 and 3 there is even a database which explains how...everything works.

Edit: Xenosaga 1 database - http://www.neoseeker.com/resourcelink.html?rlid=147349&rid=136578

After reading from that database I can confidently say that this makes references to scientific principles, but that's not the same thing as being grounded in science. How does a logic propulsion system work? Why do people fly around in mechs? How does a phase transfer cannnon work? Why can human-sized Realians used weaponry that fires ordinance comparable to tanks without being blasted backwards and torn to pieces? Why can a mech that's 10m tall destroy structures "several kilometers long" with a single "blow"?

You can see what I'm saying.

Compare that to the kin of stuff you find in the Mass Effect Codex:

http://masseffect.wikia.com/wiki/Codex/Technology#Mass_Effect_Fields

http://masseffect.wikia.com/wiki/Codex/Technology#Element_Zero_.28.22Eezo.22.29

http://masseffect.wikia.com/wiki/Codex/Technology#Communications

http://masseffect.wikia.com/wiki/Codex/Ships_and_Vehicles#FTL_Drive

http://masseffect.wikia.com/wiki/Codex/Ships_and_Vehicles#Space_Combat:_Combat_Endurance

http://masseffect.wikia.com/wiki/Codex/Ships_and_Vehicles#Starships:_Dreadnought

http://masseffect.wikia.com/wiki/Codex/Aliens:_Council_Races#Salarians

http://masseffect.wikia.com/wiki/Codex/Weapons,_Armor_and_Equipment#Mass_Accelerators

http://masseffect.wikia.com/wiki/Codex/Weapons,_Armor_and_Equipment#Small_Arms

And this is only scratching the surface. Everything in this series is justified to the best of the abilities of the people writing it. This series is grounded in a way that Xenosaga is not, regardless of all the references that Xenosaga makes.

I don't recommend reading too much of the Codex as it potentially contains spoilers but hopefully you get the gist.