Just tried out 3.1.2 and same thing is happening. Not sure if this has anything to do with it but my main screen is a 23" lcd running at 1920x1280 and my second display is an old 17" crt running at 1280x1024, which is the one i have set to random wallpapers from my hard drive. Main display is set to one wallpaper.
i have the taskbar enabled on the second display and both taskbars set to autohide. I've noticed that the taskbar, when it pops up, does so just before the wallpaper will change.
Edit:
Just as a test i set both screens to just use a background color and everytime i hit Apply or OK the taskbar will pop up then too.
Edit 2: Troubleshooting info
--- Machine ------------
Operating System: Microsoft Windows NT 6.1.7100.0
Operating System Version: 6.1.7100.0
Detected Version: Windows7
CPU: x64
Date/Time (UTC): 09/04/2009 20:49:16
Date/Time (Local): 09/04/2009 15:49:16
.NET Framework: 2.0.50727.4918
CurrentCulture: English (United States) (en-US ~ en)
CurrentUICulture: English (United States) (en-US ~ en)
--- Wallpaper ------------
Wallpaper Span: False
Monitor #1 Image: D:\WOW Backup Stuff\septcal.jpg (Exists: True)
Monitor #2 Image: E:\Misc Pictures\Backgrounds\Cars\(43).jpg (Exists: True)
Windows Wallpaper: C:\Users\JP\AppData\Roaming\DisplayFusion\Wallpaper_1.jpg (Exists: True)
Generated Wallpaper Folder: C:\Users\JP\AppData\Roaming\DisplayFusion
--- DisplayFusion ------------
Name: DisplayFusion Pro v3.1.2
Build Date: Sep 03, 2009 22:06
Pro: True
Pro License: 101-DAVC-C24A-PGDZ (truncated)
Command Line: "C:\Program Files (x86)\DisplayFusion\DisplayFusion.exe"
Current Folder: C:\Program Files (x86)\DisplayFusion
Performance Mode: False
Mouse Hooks: True
Application Hooks: False
System Hooks Pause FullScreen: False
Process Integrity Level: High
--- DisplayFusion x86 Hook DLL ------------
Path: C:\Program Files (x86)\DisplayFusion\DisplayFusionHookx86.dll
Name: DisplayFusion Hook
Prod Version: 1, 8, 0, 0
File Version: 1, 8, 0, 0
Size: 48,304 bytes
--- DisplayFusion x64 Hook DLL ------------
Path: C:\Program Files (x86)\DisplayFusion\DisplayFusionHookx64.dll
Name: DisplayFusion Hook
Prod Version: 1, 8, 0, 0
File Version: 1, 8, 0, 0
Size: 60,592 bytes
--- DisplayFusion x86 Hook Exe ------------
Path: C:\Program Files (x86)\DisplayFusion\DisplayFusionHookx86.exe
Name: DisplayFusion Hook x86
Prod Version: 1, 2, 0, 0
File Version: 1, 2, 0, 0
Size: 92,848 bytes
--- Monitor 1 (Primary:True ~ Real:True) ------------
Name: \\.\DISPLAY1
Bounds: {X=0,Y=0,Width=1920,Height=1080}
WorkArea: {X=0,Y=0,Width=1920,Height=1080}
--- Monitor 2 (Primary:False ~ Real:True) ------------
Name: \\.\DISPLAY2
Bounds: {X=1920,Y=0,Width=1280,Height=1024}
WorkArea: {X=1920,Y=0,Width=1280,Height=1022}
--- Screens ------------
Count: 2
Point Min X: 0
Point Min Y: 0
Point Max X: 3200
Point Max Y: 1080
Total Width: 3200
Total Height: 1080
ActiveDesktop: False
--- Screen 1------------
ScreenID: 0
Device: \\.\DISPLAY1
Bounds: {X=0,Y=0,Width=1920,Height=1080}
MoveH: 0
MoveV: 0
--- Screen 2------------
ScreenID: 1
Device: \\.\DISPLAY2
Bounds: {X=1920,Y=0,Width=1280,Height=1024}
MoveH: 0
MoveV: 0
--- Managed Threads ------------
Count: 3
ID:3 ~ Name:TaskbarManager ~ Age:01:07:23.4114000 ~ Alive:True ~ BG:True ~ State:Background ~ Thread Name:TaskbarManager_18a06c2a-bd8b-4df2-8938-8e18a447b9b7
ID:4 ~ Name:HookManager ~ Age:01:07:23.4114000 ~ Alive:True ~ BG:True ~ State:Background ~ Thread Name:HookManager_d7f9c2ae-03f1-4f2b-92be-6ed90c2f4d4b
ID:6 ~ Name:HookManagerProcess ~ Age:01:07:23.3646000 ~ Alive:True ~ BG:True ~ State:Background ~ Thread Name:HookManagerProcess_6b44dda4-242b-4bb7-9176-d826f6404f9f
--- Taskbars ------------
Enabled: True
Auto-hide: True
Visual Styles: True
Visual Styles Detected: True
DWM Composition Detected: True
Opacity: 100
Flash Blink: True
Window Options: ShowRelevant
Button Width Max: 160
Sizing Bar Size: 0
Full Screen: None
Count: 1
--- Taskbar 1------------
Location: {X=1920,Y=1022,Width=1280,Height=2}
Monitor ID: 2
Position (Setting/Current): Automatic / Bottom
TopMost: False
Buttons (2):
"Downloads" (00080486:00080486:00080486 ~ Icon_Big ~ None ~ {X=2163,Y=148,Width=1037,Height=442})
"iTunes" (0004054a:0004054a:0004054a ~ GCL_HIcon ~ None ~ {X=2080,Y=7,Width=338,Height=65})
--- Deleted Items (2)------------
00080486:00080486:00080486
0004054a:0004054a:0004054a
--- Taskbar Items ------------
"DisplayFusion Pro ~ Settings" (001e0532:001e0532:001e0532 ~ None ~ {X=584,Y=289,Width=751,Height=501})
"Downloads" (00080486:00080486:00080486 ~ None ~ {X=2163,Y=148,Width=1037,Height=442})
"Curse Client" (0003039a:0003039a:0003039a ~ None ~ {X=753,Y=288,Width=414,Height=464})
"iTunes" (0004054a:0004054a:0004054a ~ None ~ {X=2080,Y=7,Width=338,Height=65})
"WoW AddOns - Curse Client v4 (PC) - Early Access Beta - WowAce.com - Mozilla Firefox" (000b0460:000b0460:000b0460 ~ None ~ {X=268,Y=11,Width=1401,Height=1026})
--- TitleBar Buttons ------------
Enabled: False
DisplayFusion Caption Button Size: {Width=35, Height=21}
System Caption Button Size: {Width=35, Height=21}