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What you're attempting to do with the editor you're accustomed to should work - you might want to provide some more details about what went wrong when you copied and pasted over to Sigil - maybe provide a sample file. Maybe the problem is the type of line endings you used.
Regarding html tags not being acknowledged, what you're saying sounds pretty strange. Again more details would help. Note that epub doesn't support all html in the same way a browser does. Some epub renderers are based directly on browsers though - ibooks is based on Safari, Sigil is based on QTWebkit. Therefore they may render things that wouldn't get normally rendered in a completely compliant app. The best way to test compliance in terms of rendering is with Adobe Digital Editions. It's not perfect either, but it follows the spec more closely than other pieces of software, and many ebook reading devices use Adobe's engine for epub.
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