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The following task has a new comment added:

FS#790 - Handling windows from Java applications
User who did this - Uli Schlachter (psychon)

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Thanks, that partly describes this bug / describes why this only affects java. 
All of those values are invalid. A proper value would e.g. look like this:

000:>:0027:60: Reply to GetProperty: type=0x1f("STRING") bytes-after=0x00000000 
data='x-terminal-emulator\000URxvt\000'

Java doesn't add the last NULL byte ('\000') which is required by ICCCM (4.1.2.5.: 
"The WM_CLASS property (of type STRING without control characters) contains two 
consecutive null-terminated strings."). So the bug is hiding somewhere in xcb-utils 
/ libxcbicccm. I'll take a look
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