Working on the testnet

Hi,

I want to mess around on the testnet to try to create and application using the multisignature transactions (working on a proof of concept) and to do that I set up a Lubuntu install and I apt-get installed bitcoind and bitcoin-qt from ppa:bitcoin/bitcoin . I opened bitcoin-qt on the testnet to let it sync and requested some test funds from the faucet. After I at synced I closed the bitcoin-qt and wanted to use the bitcoind deamon to do some testing using RPC calls. However I discovered the balance on the daemon would stay zero.

It seems I am working on 2 different testnets:

QT:

{
"version" : 80100,
"protocolversion" : 70001,
"walletversion" : 60000,
"balance" : 9.50000000,
"blocks" : 81884,
"connections" : 4,
"proxy" : "",
"difficulty" : 230.52874574,
"testnet" : true,
"keypoololdest" : 1369489519,
"keypoolsize" : 101,
"paytxfee" : 0.00000000,
"errors" : ""
}

daemon:

{
"version" : 60202,
"protocolversion" : 60001,
"walletversion" : 60000,
"balance" : 0.00000000,
"blocks" : 46722,
"connections" : 3,
"proxy" : "",
"difficulty" : 7.26984055,
"testnet" : true,
"keypoololdest" : 1369491612,
"keypoolsize" : 101,
"paytxfee" : 0.00000000,
"errors" : ""
}

which is connected to which? I also cannot seem to be able to ask the balance of either using RPC using bitcoin-node, and from the command line only from bitcoind daemon. My bitcoin.conf is (I tried with testnet=1 earlier):

rpcuser=test
rpcpassword=AdtdlkoOwR
testnet=3

Any help on what I'm doing wrong?