I am also having this same issue, and wpa_supplicant is working.

Network_manager just gives up.

dmesg (loading module)

[  146.937273] p54: LM86 firmware
[  147.916780] wmaster0: Selected rate control algorithm 'simple'
[  148.099899] wiphy0: hwaddr 00:09:5b:92:b9:62, isl3890
[  148.639451] wmaster0: Does not support passive scan, disabled
[  148.662593] eth1: starting scan
[  149.321098] eth1: scan completed

Running wpa_supplicant

[EMAIL PROTECTED]:~# wpa_supplicant -Dwext -i eth1 -c test.wpc.conf -K
ioctl[SIOCSIWMODE]: Device or resource busy
Could not configure driver to use managed mode
ioctl[SIOCSIWAUTH]: Operation not supported
WEXT auth param 4 value 0x0 - ioctl[SIOCSIWAUTH]: Operation not supported
WEXT auth param 5 value 0x1 - Trying to associate with 00:13:10:07:ff:59 
(SSID='MYAP' freq=2437 MHz)
ioctl[SIOCSIWAUTH]: Operation not supported
WEXT auth param 5 value 0x1 - ioctl[SIOCSIWMODE]: Device or resource busy
Association request to the driver failed
Associated with 00:13:10:07:ff:59
WPA: Key negotiation completed with 00:13:10:07:ff:59 [PTK=CCMP GTK=TKIP]
CTRL-EVENT-CONNECTED - Connection to 00:13:10:07:ff:59 completed (auth) [id=0 
id_str=]

Running dhclient.

[EMAIL PROTECTED]:~# dhclient eth1
Internet Systems Consortium DHCP Client V3.0.4
Copyright 2004-2006 Internet Systems Consortium.
All rights reserved.
For info, please visit http://www.isc.org/sw/dhcp/

wmaster0: unknown hardware address type 801
wmaster0: unknown hardware address type 801
Listening on LPF/eth1/00:09:5b:92:b9:62
Sending on   LPF/eth1/00:09:5b:92:b9:62
Sending on   Socket/fallback
DHCPDISCOVER on eth1 to 255.255.255.255 port 67 interval 7
DHCPOFFER from 10.250.250.3
DHCPREQUEST on eth1 to 255.255.255.255 port 67
DHCPACK from 10.250.250.3
bound to 10.250.250.221 -- renewal in 40886 seconds.

excert from /var/log/syslog for networkmanager.

Apr 23 21:08:57 manuel NetworkManager: <information>^Iwpa_supplicant(5854): 
wpa_driver_wext_set_drop_unencrypted
Apr 23 21:08:57 manuel NetworkManager: <information>^Iwpa_supplicant(5854): 
State: SCANNING -> ASSOCIATING
Apr 23 21:08:57 manuel NetworkManager: <information>^Iwpa_supplicant(5854): 
wpa_driver_wext_set_operstate: operstate 0->0 (DORMANT)
Apr 23 21:08:57 manuel NetworkManager: <information>^Iwpa_supplicant(5854): 
WEXT: Operstate: linkmode=-1, operstate=5
Apr 23 21:08:57 manuel NetworkManager: <information>^Iwpa_supplicant(5854): 
wpa_driver_wext_associate
Apr 23 21:08:57 manuel NetworkManager: <information>^Iwpa_supplicant(5854): 
Association request to the driver failed
Apr 23 21:08:57 manuel NetworkManager: <information>^Iwpa_supplicant(5854): 
CTRL_IFACE monitor send - hexdump(len=40): 2f 76 61 72 2f 72 75 6e 2f 4e 65 74 
77 6f 72 6b 4d 61 6e 61 67 65 72 2f 77 70 61 5f 63 74 72 6c 5f 34 38 35 34 2d 
35 00
Apr 23 21:08:57 manuel NetworkManager: <information>^Iwpa_supplicant(5854): 
Setting authentication timeout: 5 sec 0 usec
Apr 23 21:08:57 manuel kernel: [  205.118740] eth1: starting scan
Apr 23 21:08:58 manuel kernel: [  205.775850] eth1: scan completed
Apr 23 21:09:02 manuel NetworkManager: <information>^IActivation 
(eth1/wireless): association took too long (>60s), failing activation.
Apr 23 21:09:02 manuel NetworkManager: <information>^IActivation (eth1) failure 
scheduled...
Apr 23 21:09:02 manuel NetworkManager: <information>^IActivation (eth1) failed 
for access point (MYAP)
Apr 23 21:09:02 manuel NetworkManager: <information>^IActivation (eth1) failed.
Apr 23 21:09:02 manuel NetworkManager: <information>^IDeactivating device eth1.
Apr 23 21:09:02 manuel NetworkManager: <information>^Iwpa_supplicant(5854): L: 
External notification - EAP success=0
Apr 23 21:09:02 manuel NetworkManager: <information>^Iwpa_supplicant(5854): 
EAPOL: External notification - EAP fail=0
Apr 23 21:09:02 manuel NetworkManager: <information>^Iwpa_supplicant(5854): 
EAPOL: External notification - portControl=Auto
Apr 23 21:09:02 manuel NetworkManager: <information>^Iwpa_supplicant(5854): 
RTM_NEWLINK: operstate=0 ifi_flags=0x11003 ([UP][LOWER_UP])
Apr 23 21:09:02 manuel NetworkManager: <information>^Iwpa_supplicant(5854): 
Wireless event: cmd=0x8b1a len=24
Apr 23 21:09:02 manuel NetworkManager: <information>^Iwpa_supplicant(5854): 
RTM_NEWLINK: operstate=0 ifi_flags=0x11003 ([UP][LOWER_UP])
Apr 23 21:09:02 manuel NetworkManager: <information>^Iwpa_supplicant(5854): 
Wireless event: cmd=0x8b19 len=8
Apr 23 21:09:02 manuel NetworkManager: <information>^Iwpa_supplicant(5854): 
Received 349 bytes of scan results (2 BSSes)
Apr 23 21:09:02 manuel NetworkManager: <information>^Iwpa_supplicant(5854): 
Scan results: 2
Apr 23 21:09:02 manuel NetworkManager: <information>^Iwpa_supplicant(-1): 
CTRL-EVENT-TERMINATING - signal 15 received
Apr 23 21:09:02 manuel NetworkManager: <information>^Iwpa_supplicant(-1): 
CTRL_IFACE monitor send - hexdump(len=40): 2f 76 61 72 2f 72 75 6e 2f 4e 65 74 
77 6f 72 6b 4d 61 6e 61 67 65 72 2f 77 70 61 5f 63 74 72 6c 5f 34 38 35 34 2d 
35 00
Apr 23 21:09:02 manuel NetworkManager: <information>^Iwpa_supplicant(-1): 
Removing interface eth1
Apr 23 21:09:02 manuel NetworkManager: <information>^Iwpa_supplicant(-1): 
State: ASSOCIATING -> DISCONNECTED
Apr 23 21:09:02 manuel NetworkManager: <information>^Iwpa_supplicant(-1): 
wpa_driver_wext_set_operstate: operstate 0->0 (DORMANT)
Apr 23 21:09:02 manuel NetworkManager: <information>^Iwpa_supplicant(-1): WEXT: 
Operstate: linkmode=-1, operstate=5
Apr 23 21:09:02 manuel NetworkManager: <information>^Iwpa_supplicant(-1): No 
keys have been configured - skip key clearing
Apr 23 21:09:02 manuel NetworkManager: <information>^Iwpa_supplicant(-1): 
EAPOL: External notification - portEnabled=0
Apr 23 21:09:02 manuel NetworkManager: <information>^Iwpa_supplicant(-1): 
EAPOL: External notification - portValid=0
Apr 23 21:09:02 manuel NetworkManager: <information>^Iwpa_supplicant(-1): 
wpa_driver_wext_set_wpa
Apr 23 21:09:02 manuel NetworkManager: <information>^Iwpa_supplicant(-1): 
wpa_driver_wext_set_drop_unencrypted
Apr 23 21:09:02 manuel NetworkManager: <information>^Iwpa_supplicant(-1): 
wpa_driver_wext_set_countermeasures
Apr 23 21:09:02 manuel kernel: [  210.076026] eth1: starting scan
Apr 23 21:09:02 manuel avahi-daemon[4872]: Withdrawing address record for 
fe80::209:5bff:fe92:b962 on eth1.
Apr 23 21:09:07 manuel kernel: [  214.401157] wmaster0: Does not support 
passive scan, disabled
Apr 23 21:09:07 manuel NetworkManager: <WARNING>^I 
nm_device_802_11_wireless_set_mode (): error setting card eth1 to 
Infrastructure mode: Device or resource busy

-- 
WPA not available from Network Manager, but works from cmdline wpa_supplicant
https://bugs.launchpad.net/bugs/105858
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