Who do the top scores refer to?
You're on the right track - they refer to a number of other developers and sysadmins who work at SE. In other words, yes, they are the trolls.
You can work out most of the names with this handy guide.
Extending from Adam Lear's answer
they refer to a number of other developers and sysadmins who work at SE
With a the full list (from inspecting the code) provided by @JohnB's edit
And sorting based on information provided by @wythagoras' answer
the codes are sorted in alphabetic order on last name.
I present to you, the trolls (which fortunately appear sorted in the same way mentioned above):
- JON = Jon Skeet (obviously)
- RAR = Roberta Arcoverde
- GBE = George Beech
- KBR = Kyle Brandt
- GBR = Greg Bray
- JBU = John Bubriski
- MCE = Marco Cecconi
- JCH = Jon Chan
- BCO = Bret Copeland
- OCO = Oded Coster (for some reason when I saw this, I immediately thought Oded)
- NCR = Nick Craver
- GDA = Geoff Dalgas
- JDI = Jarrod Dixon
- BDU = Benjamin Dumke-von der Ehe
- YEL = Yaakov Ellis
- AGA = Aurelien Gasser
- AGO = Alec Gorge
- MGR = Marc Gravell, another of SO's top contributors of all time
- DHA = David Haney
- JHA = Jason Harvey
- MHE = Mark Henderson
- BHO = Benjamin Hodgson
- MHO = Max Horstmann
- NLA = Nick Larsen
- ALE = Adam Lear
- TLI = Tom Limoncelli
- ALI = Arie Litovsky
- SMA = Shane Madden
- AMA = Adam Maras
- MMC = Mike McGranahan
- KMO = Kevin Montrose
- BNI = Brian Nickel
- XNI = Xavier Nicollet
- CPE = Graig Peterson
- SPR = Samo Prelog
- JPU = Jason Punyon
- KRA = Kasra Rahjerdi
- DRO = Dave Robinson
- BRO = Bryan Ross
- JSH = Jason Shantz
- MSH = Matt Sherman
- KTH = Kirti Thorat
- STR = Steve Trout
- DWA = Dean Ward
- AWA = Alex Warren
- REX = David Fullerton
To be more precise, the codes seem to refer to the first letter of the first name and first two letters of the last name of the employees in the Engineering section of the link in Adam Lear's answer. Also, the codes are sorted in alphabetic order on last name.
The only one that doesn't fit is REX.