I have have this problem too. I have a Acer 5737z Nootebook. It only
works with a card at boot (Jaunty).


05:00.0 System peripheral: JMicron Technologies, Inc. SD/MMC Host Controller
        Subsystem: Acer Incorporated [ALI] Device 0160
        Control: I/O+ Mem+ BusMaster+ SpecCycle- MemWINV- VGASnoop- ParErr- 
Stepping- SERR- FastB2B- DisINTx-
        Status: Cap+ 66MHz- UDF- FastB2B- ParErr- DEVSEL=fast >TAbort- <TAbort- 
<MAbort- >SERR- <PERR- INTx-
        Latency: 0, Cache Line Size: 64 bytes
        Interrupt: pin A routed to IRQ 23
        Region 0: Memory at f0500000 (32-bit, non-prefetchable) [size=256]
        Capabilities: [a4] Power Management version 3
                Flags: PMEClk- DSI- D1- D2- AuxCurrent=0mA 
PME(D0-,D1-,D2-,D3hot-,D3cold-)
                Status: D0 PME-Enable- DSel=0 DScale=0 PME-
        Capabilities: [80] Express (v1) Endpoint, MSI 00
                DevCap: MaxPayload 128 bytes, PhantFunc 0, Latency L0s <64ns, 
L1 <1us
                        ExtTag- AttnBtn- AttnInd- PwrInd- RBE+ FLReset-
                DevCtl: Report errors: Correctable- Non-Fatal- Fatal- 
Unsupported-
                        RlxdOrd+ ExtTag- PhantFunc- AuxPwr- NoSnoop-
                        MaxPayload 128 bytes, MaxReadReq 512 bytes
                DevSta: CorrErr- UncorrErr- FatalErr- UnsuppReq+ AuxPwr- 
TransPend-
                LnkCap: Port #1, Speed 2.5GT/s, Width x1, ASPM L0s L1, Latency 
L0 unlimited, L1 unlimited
                        ClockPM- Suprise- LLActRep- BwNot-
                LnkCtl: ASPM Disabled; RCB 64 bytes Disabled- Retrain- CommClk+
                        ExtSynch- ClockPM- AutWidDis- BWInt- AutBWInt-
                LnkSta: Speed 2.5GT/s, Width x1, TrErr- Train- SlotClk+ 
DLActive- BWMgmt- ABWMgmt-
        Capabilities: [94] Message Signalled Interrupts: Mask- 64bit- Queue=0/0 
Enable-
                Address: fffffffc  Data: 0000
        Kernel driver in use: sdhci-pci
        Kernel modules: sdhci-pci

05:00.2 SD Host controller: JMicron Technologies, Inc. Standard SD Host 
Controller (prog-if 01)
        Subsystem: Acer Incorporated [ALI] Device 0160
        Control: I/O+ Mem+ BusMaster- SpecCycle- MemWINV- VGASnoop- ParErr- 
Stepping- SERR- FastB2B- DisINTx-
        Status: Cap+ 66MHz- UDF- FastB2B- ParErr- DEVSEL=fast >TAbort- <TAbort- 
<MAbort- >SERR- <PERR- INTx-
        Interrupt: pin A routed to IRQ 23
        Region 0: Memory at f0500400 (32-bit, non-prefetchable) [size=256]
        Capabilities: [a4] Power Management version 3
                Flags: PMEClk- DSI- D1- D2- AuxCurrent=0mA 
PME(D0-,D1-,D2-,D3hot-,D3cold-)
                Status: D0 PME-Enable- DSel=0 DScale=0 PME-
        Capabilities: [80] Express (v1) Endpoint, MSI 00
                DevCap: MaxPayload 128 bytes, PhantFunc 0, Latency L0s <64ns, 
L1 <1us
                        ExtTag- AttnBtn- AttnInd- PwrInd- RBE+ FLReset-
                DevCtl: Report errors: Correctable- Non-Fatal- Fatal- 
Unsupported-
                        RlxdOrd+ ExtTag- PhantFunc- AuxPwr- NoSnoop-
                        MaxPayload 128 bytes, MaxReadReq 128 bytes
                DevSta: CorrErr- UncorrErr- FatalErr- UnsuppReq+ AuxPwr- 
TransPend-
                LnkCap: Port #1, Speed 2.5GT/s, Width x1, ASPM L0s L1, Latency 
L0 unlimited, L1 unlimited
                        ClockPM- Suprise- LLActRep- BwNot-
                LnkCtl: ASPM Disabled; RCB 64 bytes Disabled- Retrain- CommClk+
                        ExtSynch- ClockPM- AutWidDis- BWInt- AutBWInt-
                LnkSta: Speed 2.5GT/s, Width x1, TrErr- Train- SlotClk+ 
DLActive- BWMgmt- ABWMgmt-
        Capabilities: [94] Message Signalled Interrupts: Mask- 64bit- Queue=0/0 
Enable-
                Address: fffffffc  Data: 0000
        Kernel modules: sdhci-pci

05:00.3 System peripheral: JMicron Technologies, Inc. MS Host Controller
        Subsystem: Acer Incorporated [ALI] Device 0160
        Control: I/O+ Mem+ BusMaster+ SpecCycle- MemWINV- VGASnoop- ParErr- 
Stepping- SERR- FastB2B- DisINTx-
        Status: Cap+ 66MHz- UDF- FastB2B- ParErr- DEVSEL=fast >TAbort- <TAbort- 
<MAbort- >SERR- <PERR- INTx-
        Latency: 0, Cache Line Size: 64 bytes
        Interrupt: pin A routed to IRQ 11
        Region 0: Memory at f0500800 (32-bit, non-prefetchable) [size=256]
        Capabilities: [a4] Power Management version 3
                Flags: PMEClk- DSI- D1- D2- AuxCurrent=0mA 
PME(D0-,D1-,D2-,D3hot-,D3cold-)
                Status: D0 PME-Enable- DSel=0 DScale=0 PME-
        Capabilities: [80] Express (v1) Endpoint, MSI 00
                DevCap: MaxPayload 128 bytes, PhantFunc 0, Latency L0s <64ns, 
L1 <1us
                        ExtTag- AttnBtn- AttnInd- PwrInd- RBE+ FLReset-
                DevCtl: Report errors: Correctable- Non-Fatal- Fatal- 
Unsupported-
                        RlxdOrd+ ExtTag- PhantFunc- AuxPwr- NoSnoop-
                        MaxPayload 128 bytes, MaxReadReq 128 bytes
                DevSta: CorrErr- UncorrErr- FatalErr- UnsuppReq+ AuxPwr- 
TransPend-
                LnkCap: Port #1, Speed 2.5GT/s, Width x1, ASPM L0s L1, Latency 
L0 unlimited, L1 unlimited
                        ClockPM- Suprise- LLActRep- BwNot-
                LnkCtl: ASPM Disabled; RCB 64 bytes Disabled- Retrain- CommClk+
                        ExtSynch- ClockPM- AutWidDis- BWInt- AutBWInt-
                LnkSta: Speed 2.5GT/s, Width x1, TrErr- Train- SlotClk+ 
DLActive- BWMgmt- ABWMgmt-
        Capabilities: [94] Message Signalled Interrupts: Mask- 64bit- Queue=0/0 
Enable-
                Address: fffffffc  Data: 0000

05:00.4 System peripheral: JMicron Technologies, Inc. xD Host Controller
        Subsystem: Acer Incorporated [ALI] Device 0160
        Control: I/O+ Mem+ BusMaster+ SpecCycle- MemWINV- VGASnoop- ParErr- 
Stepping- SERR- FastB2B- DisINTx-
        Status: Cap+ 66MHz- UDF- FastB2B- ParErr- DEVSEL=fast >TAbort- <TAbort- 
<MAbort- >SERR- <PERR- INTx-
        Latency: 0, Cache Line Size: 64 bytes
        Interrupt: pin A routed to IRQ 11
        Region 0: Memory at f0500c00 (32-bit, non-prefetchable) [size=256]
        Capabilities: [a4] Power Management version 3
                Flags: PMEClk- DSI- D1- D2- AuxCurrent=0mA 
PME(D0-,D1-,D2-,D3hot-,D3cold-)
                Status: D0 PME-Enable- DSel=0 DScale=0 PME-
        Capabilities: [80] Express (v1) Endpoint, MSI 00
                DevCap: MaxPayload 128 bytes, PhantFunc 0, Latency L0s <64ns, 
L1 <1us
                        ExtTag- AttnBtn- AttnInd- PwrInd- RBE+ FLReset-
                DevCtl: Report errors: Correctable- Non-Fatal- Fatal- 
Unsupported-
                        RlxdOrd+ ExtTag- PhantFunc- AuxPwr- NoSnoop-
                        MaxPayload 128 bytes, MaxReadReq 128 bytes
                DevSta: CorrErr- UncorrErr- FatalErr- UnsuppReq+ AuxPwr- 
TransPend-
                LnkCap: Port #1, Speed 2.5GT/s, Width x1, ASPM L0s L1, Latency 
L0 unlimited, L1 unlimited
                        ClockPM- Suprise- LLActRep- BwNot-
                LnkCtl: ASPM Disabled; RCB 64 bytes Disabled- Retrain- CommClk+
                        ExtSynch- ClockPM- AutWidDis- BWInt- AutBWInt-
                LnkSta: Speed 2.5GT/s, Width x1, TrErr- Train- SlotClk+ 
DLActive- BWMgmt- ABWMgmt-
        Capabilities: [94] Message Signalled Interrupts: Mask- 64bit- Queue=0/0 
Enable-
                Address: fffffffc  Data: 0000

Apr 25 19:19:13 Notebook kernel: [   11.746008] sdhci: Secure Digital Host 
Controller Interface driver
Apr 25 19:19:13 Notebook kernel: [   11.746011] sdhci: Copyright(c) Pierre 
Ossman
Apr 25 19:19:13 Notebook kernel: [   11.817898] sdhci-pci 0000:05:00.0: SDHCI 
controller found [197b:2382] (rev 0)
Apr 25 19:19:13 Notebook kernel: [   11.817927] sdhci-pci 0000:05:00.0: PCI INT 
A -> Link[Z011] -> GSI 23 (level, low) -> IRQ 23
Apr 25 19:19:13 Notebook kernel: [   11.817997] sdhci-pci 0000:05:00.0: setting 
latency timer to 64
Apr 25 19:19:13 Notebook kernel: [   11.818053] mmc0: SDHCI controller on PCI 
[0000:05:00.0] using ADMA
Apr 25 19:19:13 Notebook kernel: [   11.818064] sdhci-pci 0000:05:00.2: SDHCI 
controller found [197b:2381] (rev 0)
Apr 25 19:19:13 Notebook kernel: [   11.818079] sdhci-pci 0000:05:00.2: PCI INT 
A -> Link[Z011] -> GSI 23 (level, low) -> IRQ 23
Apr 25 19:19:13 Notebook kernel: [   11.818086] sdhci-pci 0000:05:00.2: 
Refusing to bind to secondary interface.
Apr 25 19:19:13 Notebook kernel: [   11.818092] sdhci-pci 0000:05:00.2: PCI INT 
A disabled

-- 
kernel does not detect card reader if card is inserted in reader before boot
https://bugs.launchpad.net/bugs/271019
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