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Properties for Beans based on Swing/AWT Component are organized differently than their Pallet counterparts. For example, a JButton based bean only has action, icon, mnemonic listed under the "Properties" category in Properties Window while a JButton from the Pallet has action, background, font, foreground, icon, mnemonic, text, toolTipText listed under the "Properties" category.
This has improved significantly. There are a few differences with properties being out of place between the 2 different scenarios. For example, now JButton only difference is Font and Border location on the Properties list is switched and in the bean case, there are some properties that show up which are disabled.
Product Version: NetBeans IDE Dev (Build 201205050400) Java: 1.7.0_04; Java HotSpot(TM) Client VM 23.0-b21 System: Windows Vista version 6.0 running on x86; Cp1252; en_US (nb)