Small update,
Tried on an Ubuntu Live USB stick and couldn't find the drives.
For sure the problem is somewhere with the QNAP card probably related to the new motherboard. lscpi output below --
01:00.0 PCI bridge: ASMedia Technology Inc. ASM2824 PCIe Gen3 Packet Switch (rev 01)
02:00.0 PCI bridge: ASMedia Technology Inc. ASM2824 PCIe Gen3 Packet Switch (rev 01)
02:04.0 PCI bridge: ASMedia Technology Inc. ASM2824 PCIe Gen3 Packet Switch (rev 01)
02:08.0 PCI bridge: ASMedia Technology Inc. ASM2824 PCIe Gen3 Packet Switch (rev 01)
02:0c.0 PCI bridge: ASMedia Technology Inc. ASM2824 PCIe Gen3 Packet Switch (rev 01)
01:00.0 PCI bridge: ASMedia Technology Inc. ASM2824 PCIe Gen3 Packet Switch (rev 01) (prog-if 00 [Normal decode])
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 124
IOMMU group: 11
Bus: primary=01, secondary=02, subordinate=06, sec-latency=0
I/O behind bridge: [disabled] [32-bit]
Memory behind bridge: 40700000-40afffff [32-bit]
Prefetchable memory behind bridge: [disabled] [64-bit]
Secondary status: 66MHz- FastB2B- ParErr- DEVSEL=fast >TAbort- <TAbort- <MAbort- <SERR- <PERR-
BridgeCtl: Parity- SERR+ NoISA- VGA- VGA16+ MAbort- >Reset- FastB2B-
PriDiscTmr- SecDiscTmr- DiscTmrStat- DiscTmrSERREn-
Capabilities: [40] Power Management version 3
Flags: PMEClk- DSI+ D1- D2- AuxCurrent=0mA PME(D0+,D1-,D2-,D3hot+,D3cold+)
Status: D0 NoSoftRst- PME-Enable- DSel=0 DScale=0 PME-
Capabilities: [50] MSI: Enable+ Count=1/1 Maskable- 64bit+
Address: 00000000fee00278 Data: 0000
Capabilities: [80] Express (v2) Upstream Port, MSI 00
DevCap: MaxPayload 512 bytes, PhantFunc 0
ExtTag+ AttnBtn- AttnInd- PwrInd- RBE+ SlotPowerLimit 75W
DevCtl: CorrErr- NonFatalErr- FatalErr- UnsupReq-
RlxdOrd+ ExtTag+ PhantFunc- AuxPwr- NoSnoop+
MaxPayload 256 bytes, MaxReadReq 512 bytes
DevSta: CorrErr+ NonFatalErr- FatalErr- UnsupReq+ AuxPwr- TransPend-
LnkCap: Port #0, Speed 8GT/s, Width x8, ASPM L1, Exit Latency L1 <64us
ClockPM+ Surprise- LLActRep- BwNot- ASPMOptComp+
LnkCtl: ASPM Disabled; Disabled- CommClk+
ExtSynch- ClockPM+ AutWidDis- BWInt- AutBWInt-
LnkSta: Speed 2.5GT/s (downgraded), Width x8
TrErr- Train- SlotClk+ DLActive- BWMgmt- ABWMgmt-
DevCap2: Completion Timeout: Not Supported, TimeoutDis- NROPrPrP- LTR+
10BitTagComp- 10BitTagReq- OBFF Not Supported, ExtFmt- EETLPPrefix-
EmergencyPowerReduction Not Supported, EmergencyPowerReductionInit-
FRS-
AtomicOpsCap: Routing-
DevCtl2: Completion Timeout: 50us to 50ms, TimeoutDis- LTR+ 10BitTagReq- OBFF Disabled,
AtomicOpsCtl: EgressBlck-
LnkCap2: Supported Link Speeds: 2.5-8GT/s, Crosslink- Retimer- 2Retimers- DRS-
LnkCtl2: Target Link Speed: 8GT/s, EnterCompliance- SpeedDis+
Transmit Margin: Normal Operating Range, EnterModifiedCompliance- ComplianceSOS-
Compliance Preset/De-emphasis: -6dB de-emphasis, 0dB preshoot
LnkSta2: Current De-emphasis Level: -6dB, EqualizationComplete- EqualizationPhase1-
EqualizationPhase2- EqualizationPhase3- LinkEqualizationRequest-
Retimer- 2Retimers- CrosslinkRes: unsupported
Capabilities: [c0] Subsystem: Device 0000:0000
Capabilities: [100 v1] Advanced Error Reporting
UESta: DLP- SDES- TLP- FCP- CmpltTO- CmpltAbrt- UnxCmplt- RxOF- MalfTLP- ECRC- UnsupReq- ACSViol-
UEMsk: DLP- SDES- TLP- FCP- CmpltTO- CmpltAbrt- UnxCmplt- RxOF- MalfTLP- ECRC- UnsupReq- ACSViol-
UESvrt: DLP+ SDES+ TLP- FCP+ CmpltTO- CmpltAbrt- UnxCmplt- RxOF+ MalfTLP+ ECRC- UnsupReq- ACSViol-
CESta: RxErr- BadTLP- BadDLLP- Rollover- Timeout- AdvNonFatalErr-
CEMsk: RxErr- BadTLP- BadDLLP- Rollover- Timeout- AdvNonFatalErr+
AERCap: First Error Pointer: 00, ECRCGenCap- ECRCGenEn- ECRCChkCap- ECRCChkEn-
MultHdrRecCap- MultHdrRecEn- TLPPfxPres- HdrLogCap-
HeaderLog: 05000001 0000000f 02080002 00000000
Capabilities: [140 v1] Power Budgeting <?>
Capabilities: [160 v1] Latency Tolerance Reporting
Max snoop latency: 15728640ns
Max no snoop latency: 15728640ns
Capabilities: [180 v1] Multicast
McastCap: MaxGroups 64, ECRCRegen-
McastCtl: NumGroups 1, Enable-
McastBAR: IndexPos 0, BaseAddr 0000000000000000
McastReceiveVec: 0000000000000000
McastBlockAllVec: 0000000000000000
McastBlockUntransVec: 0000000000000000
McastOverlayBAR: OverlaySize 0 (disabled), BaseAddr 0000000000000000
Capabilities: [1c0 v1] Secondary PCI Express
LnkCtl3: LnkEquIntrruptEn- PerformEqu-
LaneErrStat: 0
Capabilities: [200 v1] L1 PM Substates
L1SubCap: PCI-PM_L1.2- PCI-PM_L1.1+ ASPM_L1.2- ASPM_L1.1+ L1_PM_Substates+
L1SubCtl1: PCI-PM_L1.2- PCI-PM_L1.1- ASPM_L1.2- ASPM_L1.1-
L1SubCtl2:
Kernel driver in use: pcieport
02:00.0 PCI bridge: ASMedia Technology Inc. ASM2824 PCIe Gen3 Packet Switch (rev 01) (prog-if 00 [Normal decode])
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 125
IOMMU group: 12
Bus: primary=02, secondary=03, subordinate=03, sec-latency=0
I/O behind bridge: [disabled] [32-bit]
Memory behind bridge: 40700000-407fffff [32-bit]
Prefetchable memory behind bridge: [disabled] [64-bit]
Secondary status: 66MHz- FastB2B- ParErr- DEVSEL=fast >TAbort- <TAbort- <MAbort- <SERR- <PERR-
BridgeCtl: Parity- SERR+ NoISA- VGA- VGA16+ MAbort- >Reset- FastB2B-
PriDiscTmr- SecDiscTmr- DiscTmrStat- DiscTmrSERREn-
Capabilities: [40] Power Management version 3
Flags: PMEClk- DSI+ D1- D2- AuxCurrent=0mA PME(D0+,D1-,D2-,D3hot+,D3cold+)
Status: D3 NoSoftRst- PME-Enable+ DSel=0 DScale=0 PME-
Capabilities: [50] MSI: Enable+ Count=1/1 Maskable- 64bit+
Address: 00000000fee00298 Data: 0000
Capabilities: [80] Express (v2) Downstream Port (Slot+), MSI 00
DevCap: MaxPayload 512 bytes, PhantFunc 0
ExtTag+ RBE+
DevCtl: CorrErr- NonFatalErr- FatalErr- UnsupReq-
RlxdOrd+ ExtTag+ PhantFunc- AuxPwr- NoSnoop+
MaxPayload 256 bytes, MaxReadReq 512 bytes
DevSta: CorrErr+ NonFatalErr- FatalErr+ UnsupReq+ AuxPwr- TransPend-
LnkCap: Port #0, Speed 8GT/s, Width x4, ASPM L1, Exit Latency L1 <64us
ClockPM+ Surprise+ LLActRep+ BwNot+ ASPMOptComp+
LnkCtl: ASPM L1 Enabled; Disabled- CommClk+
ExtSynch- ClockPM- AutWidDis- BWInt- AutBWInt-
LnkSta: Speed 2.5GT/s, Width x1
TrErr- Train- SlotClk+ DLActive- BWMgmt+ ABWMgmt-
SltCap: AttnBtn- PwrCtrl- MRL- AttnInd- PwrInd- HotPlug- Surprise-
Slot #0, PowerLimit 0W; Interlock- NoCompl-
SltCtl: Enable: AttnBtn- PwrFlt- MRL- PresDet- CmdCplt- HPIrq- LinkChg-
Control: AttnInd Unknown, PwrInd Unknown, Power- Interlock-
SltSta: Status: AttnBtn- PowerFlt- MRL- CmdCplt- PresDet- Interlock-
Changed: MRL- PresDet+ LinkState+
DevCap2: Completion Timeout: Not Supported, TimeoutDis- NROPrPrP- LTR+
10BitTagComp- 10BitTagReq- OBFF Not Supported, ExtFmt- EETLPPrefix-
EmergencyPowerReduction Not Supported, EmergencyPowerReductionInit-
FRS- ARIFwd+
AtomicOpsCap: Routing-
DevCtl2: Completion Timeout: 50us to 50ms, TimeoutDis- LTR- 10BitTagReq- OBFF Disabled, ARIFwd-
AtomicOpsCtl: EgressBlck-
LnkCap2: Supported Link Speeds: 2.5-8GT/s, Crosslink- Retimer- 2Retimers- DRS-
LnkCtl2: Target Link Speed: 8GT/s, EnterCompliance- SpeedDis+, Selectable De-emphasis: -3.5dB
Transmit Margin: Normal Operating Range, EnterModifiedCompliance- ComplianceSOS-
Compliance Preset/De-emphasis: -6dB de-emphasis, 0dB preshoot
LnkSta2: Current De-emphasis Level: -3.5dB, EqualizationComplete+ EqualizationPhase1+
EqualizationPhase2+ EqualizationPhase3+ LinkEqualizationRequest-
Retimer- 2Retimers- CrosslinkRes: unsupported
Capabilities: [c0] Subsystem: Device 0000:0000
Capabilities: [100 v1] Advanced Error Reporting
UESta: DLP- SDES- TLP- FCP- CmpltTO- CmpltAbrt- UnxCmplt- RxOF- MalfTLP- ECRC- UnsupReq+ ACSViol-
UEMsk: DLP- SDES- TLP- FCP- CmpltTO- CmpltAbrt- UnxCmplt- RxOF- MalfTLP- ECRC- UnsupReq- ACSViol-
UESvrt: DLP+ SDES+ TLP- FCP+ CmpltTO- CmpltAbrt- UnxCmplt- RxOF+ MalfTLP+ ECRC- UnsupReq- ACSViol-
CESta: RxErr- BadTLP- BadDLLP- Rollover- Timeout- AdvNonFatalErr+
CEMsk: RxErr- BadTLP- BadDLLP- Rollover- Timeout- AdvNonFatalErr+
AERCap: First Error Pointer: 14, ECRCGenCap- ECRCGenEn- ECRCChkCap- ECRCChkEn-
MultHdrRecCap- MultHdrRecEn- TLPPfxPres- HdrLogCap-
HeaderLog: 04000001 0000000f 03000003 00000000
Capabilities: [140 v1] Power Budgeting <?>
Capabilities: [160 v1] Latency Tolerance Reporting
Max snoop latency: 0ns
Max no snoop latency: 0ns
Capabilities: [180 v1] Multicast
McastCap: MaxGroups 64, ECRCRegen-
McastCtl: NumGroups 1, Enable-
McastBAR: IndexPos 0, BaseAddr 0000000000000000
McastReceiveVec: 0000000000000000
McastBlockAllVec: 0000000000000000
McastBlockUntransVec: 0000000000000000
McastOverlayBAR: OverlaySize 0 (disabled), BaseAddr 0000000000000000
Capabilities: [1c0 v1] Secondary PCI Express
LnkCtl3: LnkEquIntrruptEn- PerformEqu-
LaneErrStat: 0
Capabilities: [200 v1] L1 PM Substates
L1SubCap: PCI-PM_L1.2- PCI-PM_L1.1+ ASPM_L1.2- ASPM_L1.1+ L1_PM_Substates+
L1SubCtl1: PCI-PM_L1.2- PCI-PM_L1.1+ ASPM_L1.2- ASPM_L1.1+
L1SubCtl2:
Kernel driver in use: pcieport
I can post the rest of the SM2824 verbose output if it's helpful.
I'm not a wizard at this, but to my knowledge the FatalErr+ would be much better as FatalErr-
If anyone has any ideas or things to do let me know.
Oh yeah, I've found some stuff like this online
https://www.spinics.net/lists/linux-pci/msg140549.html
But I'm too dumb to follow it. Maybe it's not of use.