I have seen this issue before on servers which have very high average disk queue lengths, some using SAN and some physical drives. It happens when the server is processing lots of transactions but the disk on the server cannot keep up with the volume of transactions generated.
You can check your servers by running:
sh stat platform.logicaldisk.*
You will see:
[0A8C:0009-0DF4] Platform.LogicalDisk.1.AssignedName = HarddiskVolume1
[0A8C:0009-0DF4] Platform.LogicalDisk.1.AvgQueueLen = 0
[0A8C:0009-0DF4] Platform.LogicalDisk.1.AvgQueueLen.Avg = 0
[0A8C:0009-0DF4] Platform.LogicalDisk.1.AvgQueueLen.Peak = 0.01
[0A8C:0009-0DF4] Platform.LogicalDisk.1.BytesReadPerSec = 0
[0A8C:0009-0DF4] Platform.LogicalDisk.1.BytesWrittenPerSec = 0
[0A8C:0009-0DF4] Platform.LogicalDisk.1.PctUtil = 0
[0A8C:0009-0DF4] Platform.LogicalDisk.1.PctUtil.Avg = 0
[0A8C:0009-0DF4] Platform.LogicalDisk.1.PctUtil.Peak = 0.52
[0A8C:0009-0DF4] Platform.LogicalDisk.1.ReadsPerSec = 0
[0A8C:0009-0DF4] Platform.LogicalDisk.1.WritesPerSec = 0
Monitor the drive which is housing your Domino data folder. If it is a Windows server you can also use perfmon or resource monitor. Ideally the AvgQueueLen.Peak should be under 1.0
You have two options.
1) Reduce the volume of transactions
You can do this by using the notes.ini settings Server_Max_Concurrent_Trans, SERVER_POOL_TASKS and <PortName>_PortThreadPoolCount= <number>
http://www-01.ibm.com/support/docview.wss?uid=swg21324864
http://www-01.ibm.com/support/docview.wss?uid=swg21207456
http://www-01.ibm.com/support/docview.wss?rs=203&uid=swg21220856
This will impact users who access databases directly on the server so be careful. Not such an issue if it's a mail server and you are using MMR.
2) Improve the disk performance
This will be up to your SAN team but if they have no clue, check if you are using a single LUN for the whole server (OS + Domino + Domino data + Transaction files + DAOS). If this is the case then split the LUN up into multiple LUNs. One for the OS and Domino program files. One for the Domino data folder. One for Transaction files and one for DAOS.
Other info on performance https://www-10.lotus.com/ldd/dominowiki.nsf/dx/Domino_Server_performance_troubleshooting_best_practices