Ok, by just leaving the wallet with the error open for quite a while, it looks like it sorted itself.
But my balance is wrong. I lost all my previously staked bbp.
14:57:05

getmininginfo
14:57:05

{
"blocks": 41931,
"currentblocksize": 1000,
"currentblocktx": 0,
"difficulty_podc": 693.6450457751241,
"difficulty_pow": 1483.662604573834,
"difficulty": 693.6450457751241,
"errors": "",
"genproclimit": 1,
"networkhashps": 713394.0251528968,
"hashps": 340.9034190167208,
"minerstarttime": "04-21-2018 12:56:51",
"hashcounter": 4098,
"pooledtx": 2,
"testnet": false,
"chain": "main",
"biblepay-generate": true,
"poolinfo1": "",
"poolinfo2": "",
"poolinfo3": "",
"podc_tried": 0,
"podc_sent": 0,
"podc_sent_amount": 0,
"podc_average_amount_sent": 0,
"miningpulse": 5,
"poolmining": true,
"pool_url": "http://pool2.biblepay.org",
"poolmining_use_ssl": false
}
14:57:18

exec getboincinfo
14:57:21

{
"Command": "getboincinfo",
"CPID": "72a5162338116948c70e904a21916e42",
"Address": "B99KSo452MCNpDEaRsWtveGpRkDyw98YYq",
"CPIDS": "72a5162338116948c70e904a21916e42;",
"CPID-Age (hours)": 423420,
"NextSuperblockHeight": 42025,
"NextSuperblockBudget": 1179301,
"72a5162338116948c70e904a21916e42_ADDRESS": "B99KSo452MCNpDEaRsWtveGpRkDyw98YYq",
"72a5162338116948c70e904a21916e42_RAC": 1978.73,
"72a5162338116948c70e904a21916e42_TEAM": 15044,
"72a5162338116948c70e904a21916e42_WCGRAC": 2657,
"72a5162338116948c70e904a21916e42_TaskWeight": 0,
"72a5162338116948c70e904a21916e42_UTXOWeight": 0,
"Total_RAC": 4635.73,
"Total Payments (One Day)": 448,
"Total Payments (One Week)": 2039,
"Total Budget (One Day)": 1179301,
"Total Budget (One Week)": 8255107,
"Superblock Count (One Week)": 8,
"Superblock Hit Count (One Week)": 8,
"Superblock List": "41820,41615,41410,41205,41000,40795,40590,40385",
"Last Superblock Height": 41820,
"Last Superblock Budget": 1179301,
"Last Superblock Payment": 448,
"Magnitude (One-Day)": 0.3798860511438555,
"Magnitude (One-Week)": 0.2469986155236994
}
14:57:37

exec stakebalance
14:57:37

{
"Command": "stakebalance",
"StakeBalance": 712
}
14:58:46

exec podcupdate true
14:59:04

{
"Command": "podcupdate",
"PODCUpdate": "Processed (8) over 1 CPID(s) successfully."
}
If you view the transaction details in the 'Transactions' tab of your wallet, you can see the amount that has been staked with the latest transaction. It takes 6 blocks for the network to recognize your staking amount, so please check again in a few blocks. It should be fine then

So I have left the wallet running for a good day now, and the balance is still not correct. The stake amount is reduced to current wallet balance.
The adresses still have the right balances from before(staked), and it looks like only the recent transactions are displayed as wallet balance, not the balance in the actual adresses.
Do I have to additionally run some commands to "activate" my old stake balance to get it to appear in my wallet?
Latest output:
13:50:59

{
"blocks": 42123,
"currentblocksize": 16224,
"currentblocktx": 20,
"difficulty_podc": 1470.386564099889,
"difficulty_pow": 4476.362763147363,
"difficulty": 1470.386564099889,
"errors": "",
"genproclimit": 4,
"networkhashps": 1044855.04312455,
"hashps": 1604.05922576901,
"minerstarttime": "04-22-2018 08:31:27",
"hashcounter": 19203935,
"pooledtx": 20,
"testnet": false,
"chain": "main",
"biblepay-generate": true,
"poolinfo1": "",
"poolinfo2": "Submitting Solution 04-22-2018 11:49:45; ",
"poolinfo3": "CFW 04-22-2018 11:49:42; ",
"podc_tried": 7,
"podc_sent": 1,
"podc_sent_amount": 98994.06,
"podc_average_amount_sent": 98013.92079207921,
"miningpulse": 10063,
"poolmining": true,
"pool_url": "http://pool.biblepay.org",
"poolmining_use_ssl": false
}
13:51:12

exec getboincinfo
13:51:16

{
"Command": "getboincinfo",
"CPID": "72a5162338116948c70e904a21916e42",
"Address": "B99KSo452MCNpDEaRsWtveGpRkDyw98YYq",
"CPIDS": "72a5162338116948c70e904a21916e42;",
"CPID-Age (hours)": 423443,
"NextSuperblockHeight": 42230,
"NextSuperblockBudget": 1179301,
"72a5162338116948c70e904a21916e42_ADDRESS": "B99KSo452MCNpDEaRsWtveGpRkDyw98YYq",
"72a5162338116948c70e904a21916e42_RAC": 1978.73,
"72a5162338116948c70e904a21916e42_TEAM": 15044,
"72a5162338116948c70e904a21916e42_WCGRAC": 2521,
"72a5162338116948c70e904a21916e42_TaskWeight": 100,
"72a5162338116948c70e904a21916e42_UTXOWeight": 712,
"Total_RAC": 4499.73,
"Total Payments (One Day)": 216,
"Total Payments (One Week)": 1995,
"Total Budget (One Day)": 1179301,
"Total Budget (One Week)": 8255107,
"Superblock Count (One Week)": 8,
"Superblock Hit Count (One Week)": 8,
"Superblock List": "42025,41820,41615,41410,41205,41000,40795,40590",
"Last Superblock Height": 42025,
"Last Superblock Budget": 1179301,
"Last Superblock Payment": 216,
"Magnitude (One-Day)": 0.1831593460872161,
"Magnitude (One-Week)": 0.2416685816428545
}