Reproduced here with Sage Version 6.3, Release Date: 2014-08-10 on OS X 
10.9.4 and Google Chrome.

1. No search box at bottom of left navbar in reference manual if I follow 
link from notebook() and help, or visit the help link directly in the 
notebook server at http://localhost:8080/doc/live/reference/index.html.

2. But search box is there if I do manual() from the sage command prompt 
and view in the same browser, which is using file URL: file:///Users/.../
sage/src/doc/output/html/en/reference/index.html

On Sunday, August 10, 2014 7:47:31 AM UTC-5, Emmanuel Charpentier wrote:
>
> Hmmm... Turns out it's not that simple :
>
> From the *NOTEBOOK*, when you click on "help", you get a new browser 
> window displaying  http://localhost:8080/help, which as a "Reference 
> manual" button leading you to 
> http://localhost:8080/doc/live/reference/index.html, which has, in bottom 
> of the left panel the mention "quick search in large character, and the 
> mention "Enter search terms or a module, class or function name." in 
> normal characters, but no input box for searching.
>
> From the *COMMAND LINE*, the manual() function directly opens a new 
> browser window opening 
> file:///usr/local/sage-6.3/src/doc/output/html/en/reference/index.html, 
> which has the same mentions as from notebook AND an input box and a "Go" 
> bytton between title and explanatory text. Calling sage from emacs with 
> sage_mode gives the same behaviour.
>
> So it *seems* that the notebook, which passes its requests to the sage 
> server, gets a Web page somewhat different from the raw file the browser 
> gets from the files of the local documentation.
>
> I hope it's clear, but it's difficult to describe.
>
> HTH,
>
> --
> Emmanuel Charpentier
>
> Le dimanche 10 août 2014 13:38:58 UTC+2, Volker Braun a écrit :
>>
>> The reference manual (http://www.sagemath.org/doc/reference/index.html 
>> <http://www.google.com/url?q=http%3A%2F%2Fwww.sagemath.org%2Fdoc%2Freference%2Findex.html&sa=D&sntz=1&usg=AFQjCNFI6s6W9Th6tx9BQ_dcDf0rMsiLfg>)
>>  
>> does have the search box even in recent versions for me. It doesn't have 
>> interactive cells. What are you looking at exactly?
>>
>>
>> On Sunday, August 10, 2014 10:07:51 AM UTC+1, Emmanuel Charpentier wrote:
>>>
>>> I just noticed that in the recent versions of Sage (6.3betaSomething), 
>>> the reference manual I get after compilation does not have an input box for 
>>> quick search in the left panel.
>>>
>>> I checked that this was not a browser problem : I have no proble 
>>> accessing the online manual's <http://www.sagemath.org/doc/reference/> 
>>> quick search box.
>>>
>>> I also checked that (my) manual *is* interactive (I can modify celle 
>>> contents and get relevant results). So I probably missed something in the 
>>> compilation configuration. The question is, of course, "What ?".
>>>
>>> Sincerely,
>>>
>>> --
>>> Emmanuel Charpentier
>>>
>>>

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