I assume you mean Enfis The Paladin's Cue Splitter. Obviusly Cue Splitter uses Microsoft's Windows Media tools/commands for cutting wma files. MS provides a GUI program with Windows Media Encoder for using these functions (Windows Media Editor).
Windows Media Editor is not a sample accurate cutter and it does not create complete WM format specific attributes (tags). It cuts the tracks on the nearest "key frames" (according to the program help). Practically this means that the cut points can be a second or so off. It looks like Cue splitter cutted files are similarly not accurate.
The file headers that Cue Splitter produces are not complete. Some of the data is copied from the original file and some is not included at all.
For example, the original sample (by Cue Splitter):
Audio Codec: Windows Media Audio 9.2 Lossless
Format: VBR Quality 100, 44 kHz, 2 channel 16 bit 1-pass VBR
Protected: No
Seekable: Yes
Trusted: No
WMA Tag dump:
Signature_Name:
Title: 23
Author: George Bizet - Carmen (Disk 1)
Copyright:
Description: Track 0
Rating:
WM/Genre:
WM/AlbumTitle: George Bizet - Carmen - CD1
WM/AlbumArtist: George Bizet - Carmen (Disk 1)
WMFSDKVersion: 11.0.5721.5145
Duration: 205730000
Bitrate: 873950
Seekable: Yes
Stridable: No
Broadcast: No
Is_Protected: No
Is_Trusted: No
HasAudio: Yes
HasImage: No
HasScript: No
HasVideo: No
CurrentBitrate: 657849
OptimalBitrate: 657849
HasAttachedImages: No
Can_Skip_Backward: No
Can_Skip_Forward: No
FileSize: 1608819
HasArbitraryDataStream: No
HasFileTransferStream: No
WM/ContainerFormat: 1
WM/TrackNumber: 23
and the same audio data after encoding it with MC12:
Audio Codec: Windows Media Audio 9.2 Lossless
Format: VBR Quality 100, 44 kHz, 2 channel 16 bit 1-pass VBR
Protected: No
Seekable: Yes
Trusted: No
WMA Tag dump:
Signature_Name:
Title: 23
Author: George Bizet - Carmen (Disk 1)
Description: Track 0
WMFSDKVersion: 11.0.5721.5145
WMFSDKNeeded: 0.0.0.0000
WM/EncodedBy: Media Center 12.0.130
WM/ToolName: Media Center
WM/ToolVersion: 12.0.130
WM/TrackNumber: 23
WM/AlbumTitle: George Bizet - Carmen - CD1
Duration: 205260000
Bitrate: 620224
Seekable: Yes
Stridable: No
Broadcast: No
Is_Protected: No
Is_Trusted: No
HasAudio: Yes
HasImage: No
HasScript: No
HasVideo: No
CurrentBitrate: 620224
OptimalBitrate: 620224
HasAttachedImages: No
Can_Skip_Backward: No
Can_Skip_Forward: No
FileSize: 1600564
HasArbitraryDataStream: No
HasFileTransferStream: No
WM/ContainerFormat: 1
IsVBR: Yes
WM/EncodingTime: 128118141702812500
ASFLeakyBucketPairs: <unknown data>
I'd guess that MC's playback engine cannot interprete the incomplete or inaccurate attributes because it expects to see some of the missing data.
For now, as a workaround, you can convert the files as I did. (foobar: wma lossless => ape, MC12: ape => wma lossless).
used EAC to extract files in WAV, then used EAC to compress the file to wma (lossless). Subsequently used Cue Splitter to create individual wma for each song.
Actually, why do you rip in disc image file & cue format and create two different WMA lossless versions (image file & separate track files)?
As far as I know, WMA lossless disc images are not commonly supported. Usually you must decompress or convert them to some other lossless format before burning CD audio discs or mounting the image files.
Perhaps some other workflow would be better for you. I'd be happy to help, but first I would need to know what exactly are your needs.