In retrospect, I regret originally referring to this as an "overraking" bug.
As you can see from the below HH (player names removed), we aren't talking about pots being overraked by a few cents, we're talking about pots being shorted by an order of magnitude more than the correct rake. For example, this pot was raked 0.18 mBTC in addition to player4 being shorted 2.50 mBTC because player2 left before the hand was over. At current prices, this single hand was "overraked" by about $10 USD and they were "raking" close to 27%.
You will also note that the timestamp on this hand shows it was played a full 4 days after SWC said that the bug had been addressed in this thread, so either SWC didn't consider it important enough to restart the server for at least 4 days after they patched it or the bug still isn't fixed.
We are deploying a fix to this bug with our next restart.
We had thought to have fixed this, but after a subsequent patch was applied it seems to have come back.
Hand #15436219: Pot Limit Big O - 0.50/1
2017-04-06 09:40:37
Table 'Deep Giant 1' Seat 4 is the button
Seat 1: player1 (211.37)
Seat 4: player2 (310.19)
Seat 5: player3 (552.98)
Seat 6: player4 (135.85)
player3: posts the small blind 8960060
player4: posts the big blind 8960032
Dealt to player4: [7s Tc Jh Kd Ts]
player1 raises to 2.50
player2 calls 2.50
player3 calls 2.50
player4 calls 2.50
*** FLOP *** [6s 3c 6d]
player3 checks
player4 checks
player1 checks
player2 checks
*** TURN *** [6s 3c 6d] [9s]
player3 checks
player4 bets 4.87
player1 folds
player2 folds
player3 folds
player4 wins pot (7.32)
*** SUMMARY ***
Seat 1: player1 (208.87) -2.50
Seat 5: player3 (550.48) -2.50
Seat 6: player4 (140.67) +4.82
Rake 0.18
Here's another hand where the pot should have been 52.65 mBTC but only 29.25 mBTC was given to the winner. The pot was "overraked" by 23.4 mBTC (~$93 USD) and they're "raking" 44%.
Hand #14410052: Pot Limit Big O - 0.25/0.50
2017-01-29 06:09:24
Table 'Deep Monster' Seat 6 is the button
Seat 3: player1 (71.31)
Seat 4: player2 (133.26)
Seat 5: player3 (146.90)
Seat 6: player4 (99.16)
player1: posts the small blind 4701836
player2: posts the big blind 4701808
Dealt to player3: [4s 7c 6c 2d Qh]
player3 folds
player4 raises to 1.50
player1 calls 1.50
player2 raises to 6
player4 calls 6
player1 raises to 24
player2 folds
player4 calls 24
FLOP [3d Jd As]
player1 checks
player4 checks
TURN [3d Jd As] [8h]
player1 bets 47.31, and is all in
player4 folds
player1 wins pot (29.25)
SUMMARY
Seat 3: player1 (76.56) +5.25
Seat 4: player2 (127.26) -6
Seat 5: player3 (146.90)
Rake 0.75