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["M. van Workum" <ubuntu@xxxxxxxxx>]

Still having the same issue up to kernel 3.13 (Trusty tahr development snapshot).
Looks like this will remain an issue for some time to come.

On the bright side, there seems to be some activity on patching a solution upstream:
https://bugzilla.kernel.org/show_bug.cgi?id=42679

** Bug watch added: Linux Kernel Bug Tracker #42679
   http://bugzilla.kernel.org/show_bug.cgi?id=42679

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https://bugs.launchpad.net/bugs/1005226

Title:
  Marvell SATA Controller. Problem booting and detecting HDDs in kernel
  3.2.0.

Status in “linux” package in Ubuntu:
  Expired

Bug description:
  While HDDs conected to my SB950 controller are detected, ones
  connected to the Marvell 88SE9172 Controller are not, also causing a
  significant delay in boot times. This was also present previously when
  when I used kernel 3.0.0 in LinuxMint 12. The affected drives are
  still able to be booted from and recognized within Windows 7.

  ## dmesg results for delayed period:
  [    6.908078] ata9: SATA link up 3.0 Gbps (SStatus 123 SControl 300)
  [    6.908948] ata9.00: failed to IDENTIFY (INIT_DEV_PARAMS failed, err_mask=0x80)
  [   12.392060] ata10: SATA link up 1.5 Gbps (SStatus 113 SControl 310)
  [   12.393795] ata10.00: failed to IDENTIFY (device reports invalid type, err_mask=0x0)
  [   17.392075] ata9: SATA link up 3.0 Gbps (SStatus 123 SControl 300)
  [   17.392958] ata9.00: failed to IDENTIFY (INIT_DEV_PARAMS failed, err_mask=0x80)
  [   17.392962] ata9: limiting SATA link speed to 1.5 Gbps
  [   22.876062] ata10: SATA link up 1.5 Gbps (SStatus 113 SControl 310)
  [   22.884055] ata9: SATA link up 1.5 Gbps (SStatus 113 SControl 310)
  [   22.884926] ata9.00: failed to IDENTIFY (INIT_DEV_PARAMS failed, err_mask=0x80)
  [   28.376054] ata9: SATA link up 1.5 Gbps (SStatus 113 SControl 310)

  I'm having a similar issue to bug #260543, "JMicron SATA Controller.
  Problem booting with kernel 2.6.24-19. Boots fine with kernel
  2.6.22-14"  [
  https://bugs.launchpad.net/ubuntu/+source/linux/+bug/260543 ].

  WORKAROUND: Disabled IOMMU in the BIOS.

  ProblemType: Bug
  DistroRelease: Ubuntu 12.04
  Package: linux-image-3.2.0-23-generic 3.2.0-23.36
  ProcVersionSignature: Ubuntu 3.2.0-23.36-generic 3.2.14
  Uname: Linux 3.2.0-23-generic x86_64
  NonfreeKernelModules: fglrx
  AlsaVersion: Advanced Linux Sound Architecture Driver Version 1.0.24.
  ApportVersion: 2.0.1-0ubuntu7
  Architecture: amd64
  AudioDevicesInUse:
   USER        PID ACCESS COMMAND
   /dev/snd/controlC1:  blairfus   1818 F.... pulseaudio
   /dev/snd/controlC0:  blairfus   1818 F.... pulseaudio
  CRDA: Error: command ['iw', 'reg', 'get'] failed with exit code 1: nl80211 not found.
  Card0.Amixer.info:
   Card hw:0 'SB'/'HDA ATI SB at 0xfdff4000 irq 16'
     Mixer name	: 'Realtek ALC889'
     Components	: 'HDA:10ec0889,1458a132,00100004'
     Controls      : 46
     Simple ctrls  : 22
  Card1.Amixer.info:
   Card hw:1 'Generic'/'HD-Audio Generic at 0xfddfc000 irq 46'
     Mixer name	: 'ATI R6xx HDMI'
     Components	: 'HDA:1002aa01,00aa0100,00100200'
     Controls      : 6
     Simple ctrls  : 1
  Card1.Amixer.values:
   Simple mixer control 'IEC958',0
     Capabilities: pswitch pswitch-joined penum
     Playback channels: Mono
     Mono: Playback [on]
  Date: Sun May 27 12:49:54 2012
  InstallationMedia: Ubuntu 12.04 LTS "Precise Pangolin" - Release amd64 (20120425)
  IwConfig:
   lo        no wireless extensions.

   eth0      no wireless extensions.
  MachineType: Gigabyte Technology Co., Ltd. GA-990FXA-UD5
  ProcEnviron:
   TERM=xterm
   PATH=(custom, no user)
   LANG=en_US.UTF-8
   SHELL=/bin/bash
  ProcFB: 0 VESA VGA
  ProcKernelCmdLine: BOOT_IMAGE=/boot/vmlinuz-3.2.0-23-generic root=UUID=487183dc-39a8-473b-9ccd-b61dae790470 ro quiet splash vt.handoff=7
  RelatedPackageVersions:
   linux-restricted-modules-3.2.0-23-generic N/A
   linux-backports-modules-3.2.0-23-generic  N/A
   linux-firmware                            1.79
  RfKill:

  SourcePackage: linux
  UpgradeStatus: No upgrade log present (probably fresh install)
  dmi.bios.date: 03/30/2012
  dmi.bios.vendor: Award Software International, Inc.
  dmi.bios.version: F7
  dmi.board.name: GA-990FXA-UD5
  dmi.board.vendor: Gigabyte Technology Co., Ltd.
  dmi.chassis.type: 3
  dmi.chassis.vendor: Gigabyte Technology Co., Ltd.
  dmi.modalias: dmi:bvnAwardSoftwareInternational,Inc.:bvrF7:bd03/30/2012:svnGigabyteTechnologyCo.,Ltd.:pnGA-990FXA-UD5:pvr:rvnGigabyteTechnologyCo.,Ltd.:rnGA-990FXA-UD5:rvr:cvnGigabyteTechnologyCo.,Ltd.:ct3:cvr:
  dmi.product.name: GA-990FXA-UD5
  dmi.sys.vendor: Gigabyte Technology Co., Ltd.

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